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Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000000.fa

@@ -0,0 +1,369 @@
+>AS2_ACLBLIBL_00044
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------------MVHLDVKKIGKIPDGGGWRAHGRDSQAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAVTTIGFFCRARAFFAAHGIT-LDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+AMQVWVNHYNYHRPHTSCGGAPPASLAPARVNNVMPSYT---------------------
+----------------
+>AS2_ACLBLIBL_00146
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+--------------------------------MTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_00227
+MTHANAPLTPTGRLRMVQRHLHEGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLQDRS
+CRPRRSPAQLDPALVTQILTLRRECKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAMTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALQVWVNHYNYHRPHTSCGNAPPASLAPARVNNVMPSYT---------------------
+----------------
+>AS2_ACLBLIBL_00556
+MTHANAPLTPTGRLRMVQRHLIDGIPQSHVAAEFRVSRPTVATWVARYLAEGAAGLQDRS
+SRPHHCPDQLDAEVVTELETLRRDHKWSARRIHHHLLAQGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRPAKKITARAPGHMVHLDVKKIGKIPDGGGWRAHGRDSQAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAVTTIGFFCRARAFFAAHGIT-LDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+AMQVWVNHYNYHRPHTSCGGAPPASLAPARVNNVMPSYS---------------------
+----------------
+>AS2_ACLBLIBL_00692
+MTHANAPLTPTGRLRMVQRHLIDGIPQSHVAAEFRVSRPTVATWVARYLAEGAAGLQDRS
+SRPHHCPDQLDAEVVTELETLRRDHKWSARRIHHHLLAQGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRPAKKITARAPGHMVHLDVKKIGKIPDGGGWRAHGRDSQAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAVTTIGFFCRARAFFAAHGIT-LDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+AMQVWVNHYNYHRPHTSCGGAPPASLAPARVNNVMPSYT---------------------
+----------------
+>AS2_ACLBLIBL_00779
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLPSASRPGGSPRGAGAHGAPGREEDRKDPRGGGWRAHGRDSEAGRASKRG-
+-PGARVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFYCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_01499
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGKIPEGGGWRAHGRDSEAGRASKRG-
+-PGARVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFYCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_01505
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------------MVHLDVKKVGRIPDGGGWRIHGRNSDQARTAGRAK
+SAGAKRGYTYLHSAVDGFSRLSYTEPLTDEKGPTAAAFLARAKAWFAAHGISHIHRVITD
+NGACYRSADF-ARIVGNRTRHQKTRPYTPRHNGKVERYQRILAEELLYAREFESEEARDT
+AIGIWNIHYNYHRPHSGAGGHPPASRLRAGVTNVWPSYS---------------------
+----------------
+>AS2_ACLBLIBL_01737
+MTHANAPLTPTGRLRMVQRHLHEGIPQAHVAAEFRVSRPTVATWVARYRAEGEVGLQDRS
+CRPRRSPAQLDPALVTQILTLRRECKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALQVWVNHYNYHRPHTSCGNAPPASLAPARVNNVMPSYT---------------------
+----------------
+>AS2_ACLBLIBL_01768
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGCRVGYTYLHSAIDGYTRLAYTEALEDEKAMTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_02336
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGCRVGYTYLHSAIDGYTRLAYTEALEDEKAMTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_02339
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+--------------------MAYTESLENEKATTAVAFLNRAREWFASHGITRIERVITD
+NGACYRSAAFTAALD--GADHRRTRPYTPKHNGKVERYNRILAEEFLYARTWTSEEQREK
+ALETWNLHYNYHRPHGVHDGKPPASATPSRVNNVLASYS---------------------
+----------------
+>AS2_ACLBLIBL_02472
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGKIPEGGGWRAHGRDSEAGRASKRG-
+-PGARVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFYCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_02555
+MTHANAPLTPTGRLRMVQRHLHEGIPQAHVAAEFRVSRPTVATWVARYRAEGEVGLQDRS
+CRPRRSPAQLDPALVTQILTLRRECKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALQVWVNHYNYHRPHTSCGNAPPASLAPARVNNVMPSYT---------------------
+----------------
+>AS2_ACLBLIBL_02613
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGKIPEGGGWRAHGRDSEAGRASKRG-
+-PGARVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFYCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYN---------------------
+----------------
+>AS2_ACLBLIBL_02632
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------------MVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIR-IDRAVTD
+NGNNYRAAEFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLHARPYSSETARRE
+ALQVWVNHYNYHRPHTSCGNAPPASLAPARVNNVMTSYT---------------------
+----------------
+>AS2_ACLBLIBL_02637
+MTHANAPLTPTGRLRMVHRHLIDGIPQAHVAAEFRVSRPTVATWVARYRAKGKAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRLGISRL
+RDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGCRVGYTYLHSAIDGYTRLAYTEALEDEKAMTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAADFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEAARRE
+ALQVWVNHYNYHRPHTSCGDTPPASLAPVRVNNVMTSYI---------------------
+----------------
+>KBS0714_MOLHKGIG_00064
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPDGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDERTVTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYT---------------------
+----------------
+>KBS0714_MOLHKGIG_01337
+MTHANAPLTPTGRLRMVQRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLASEGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRAHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSERARRE
+ALQVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYI---------------------
+----------------
+>KBS0714_MOLHKGIG_01952
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRAHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYS---------------------
+----------------
+>KBS0714_MOLHKGIG_02068
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGRIPDGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALPDERAATTVSFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYI---------------------
+----------------
+>KBS0714_MOLHKGIG_02111
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPEVVAQIQTLRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYI---------------------
+----------------
+>KBS0714_MOLHKGIG_02278
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPEVVAQIQTLRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYN---------------------
+----------------
+>SA211_MHAAABBN_00012
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPEVVAQIQTLRRREKWSARRIHHHLVSEGHRVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYN---------------------
+----------------
+>SA211_MHAAABBN_00041
+MTHANAPLTPTGRLRMVHRHLNDGIPQSHVAAEFRVSRPTVATWVARYRAEGEAGLQDRS
+SRPHRSPARLDPAIVAELEALRRAEKWSARRIHHHLVGEGHQVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGRIPEGGGWRTHGRDSEAGRASKRG-
+-SGQRVGYTYLHSAIDGYTRLAYTEALEDERTVTTIGFYCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALQVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYT---------------------
+----------------
+>SA211_MHAAABBN_00137
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLLDRP
+SRPRRSPAQLDPEVVAQIQTLRRREKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+PDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRAHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVVTD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYT---------------------
+----------------
+>SA211_MHAAABBN_00312
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRDSEAGRASKRG-
+-AGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSEQARRE
+ALQVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYT---------------------
+----------------
+>SA211_MHAAABBN_00352
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLQDRS
+SRPHHCPAQLDIAILAEIEALRRDQKWSARRIHHHLVSEGHQLCLRTVGRWLHRLGISRL
+PDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPDGGGWRAHGRDCENARAAKRG-
+-PGRRVGYTYLHSAVDGFTRLAYTEALPDERAATTVSFFCRARAFFAAHGIT-VDRVITD
+NGANYRAAEFTMKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVIYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYN---------------------
+----------------
+>SA211_MHAAABBN_01118
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------------MVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFFCRARAFFAEHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSEQARRE
+ALQVWVNHYNYHRPHTSCGNAPPASLAPARVNNVMPSYN---------------------
+----------------
+>SA211_MHAAABBN_01160
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYS---------------------
+----------------
+>SA211_MHAAABBN_01236
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRDSEAGRASKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDERTVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPTSLAPARVNNVMPSYN---------------------
+----------------
+>SA211_MHAAABBN_01818
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPEVVAQIQTLRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRAGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYI---------------------
+----------------
+>SA211_MHAAABBN_01821
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHQLCLRTVGRWLHRAGISRL
+RDLTPAGEDLRRQPARRITARGPGHMVHLDVKKIGRIPDGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALPDERAATTVSFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYT---------------------
+----------------
+>SA211_MHAAABBN_01968
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------------MVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPTSLAPARVNNVMPSYI---------------------
+----------------
+>SA211_MHAAABBN_01971
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLLDRP
+SRPHRSPAQLDPEVVAQIQTLRRREKWSARRIHHYLVSEGHQLCLRTVGRWLHRLGISRL
+PDLAPTGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYS---------------------
+----------------
+>SA211_MHAAABBN_02077
+MIHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLLDRP
+SRPRRSPAQLDPVLVAQIHALRRERKWSARRIHHHLASEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYS---------------------
+----------------
+>TT9_LFPAFLNI_00274
+MTHANAPLTPTGRLRMVQRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLASEGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYS---------------------
+----------------
+>TT9_LFPAFLNI_00518
+---------------MAQRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-AGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVIYARPYSSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPTSLAPARVNNVMPSYN---------------------
+----------------
+>TT9_LFPAFLNI_00800
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVTQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRSHTSCGDAPPASLAPARVNNVMPSYT---------------------
+----------------
+>TT9_LFPAFLNI_00879
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYN---------------------
+----------------
+>TT9_LFPAFLNI_01175
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVTQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALAVWVNHYNYHRSHTSCGDAPPASLAPARVNNVMPSYI---------------------
+----------------
+>TT9_LFPAFLNI_01546
+MTHANAPLTPTGRLRMVQRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLASEGHQLCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGRIPEGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDEKAVTTIGFFCRARAFFAAHGIT-VDRVITD
+NGNNYRAVDFTRKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYSSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPTRVNNVMPSYS---------------------
+----------------
+>TT9_LFPAFLNI_01570
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGYTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSEQARRE
+ALQVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMPSYT---------------------
+----------------
+>TT9_LFPAFLNI_01997
+---------------MVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAQGEAGLQDLP
+SRPHRSPAQLDPVLVAQIHALRRERKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+RDLTPAGEDLRQRP-QKITARGPGHMVHLDVKKIGKIPDGGGWRTHGRESEAGRASKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALEDERAATTVSFYCRARAFFAAHGIT-VDRVITD
+NGNNYRAADFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVIYARPYTSEQARRE
+ALTVWVNHYNYHRPHTSCGDAPPTSLAPARVYNVMPSYS---------------------
+----------------
+>TT9_LFPAFLNI_02102
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLQDRS
+CRPRRSPAQLDPEVVAQIQTLRRREKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+PDLAPTGEDLRQRP-QKITARGPGRMVHLDVKKIGRIPDGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALPDERAATTVSFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYT---------------------
+----------------
+>TT9_LFPAFLNI_02106
+MTHANAPLTPTGRLRMVHRHLHDGIPQAHVAAEFRVSRPTVATWVARYRAEGEAGLQDRS
+CRPRRSPAQLDPEVVAQIQTLRRREKWSARRIHHHLVSEGHRVCLRTVGRWLHRLGISRL
+PDLAPTGEDLRQRP-QKITARGPGRMVHLDVKKIGRIPDGGGWRAHGRDSENARAAKRG-
+-PGRRVGYTYLHSAIDGFTRLAYTEALPDERAATTVSFFCRARAFFAAHGIR-IDRVITD
+NGNNYRAVDFTAKVVSLGGRHHRIRPYTPRHNGKVERYNRLMVDEVLYARPYTSETARRE
+ALAVWVNHYNYHRPHTSCGDAPPASLAPARVNNVMTSYNYLFGLLMVTRSPECALLGHGP
+DQRGWLLDTYLRGLRP
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000001.fa

@@ -0,0 +1,289 @@
+>AS2_ACLBLIBL_00691
+MTAPHILDPAGLLREALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPGRATQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMATELDEHVESFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHTGLR
+EAIAANLPGATWQRCRTHYAANLMGITPKNMWPAVKAMLHSVYDQPDAQAVDAQFDRLLD
+YVSEKL--------------PAV----AEHLDAARADILAFTTFPKDVWTQVWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLHRC-RLTPVSNT
+GDEVDTDT--ALELS-------------A
+>AS2_ACLBLIBL_00721
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEHVESFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHPGLK
+DAIAANLPGAVWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVSNT
+GNEVNPDTAPALEFS-------------A
+>AS2_ACLBLIBL_00896
+MTAPHILDPAGLLREALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPGRATQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMATELDEHVESFRHRPLGEALPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHTGLR
+EAIAANLPGATWQRCRTHYAANLMGITPKNMWPAVKAMLHSVYDQPDAQAVDAQFDRLLD
+YVSEKLLYGGRAPGRCPGGHPGLHDLPEGRVDAGLVEQSGRAAQPRD---------PPP-
+-----HRRG---GHLPQPGS-HRQAGRCGAGRADR-------------------------
+-----------------------------
+>AS2_ACLBLIBL_02500
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEQVEAFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHPGLK
+DAIAANLPGAVWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVSNT
+GNEVNPDTAPALEFS-------------A
+>AS2_ACLBLIBL_02671
+MTAPHILDPAGLLGEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPSSSRTAQR
+NGYRHRDLDTRVGTLDVAIPKLRSGTYFPDWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGVNALSKSQVSRMATELDEQVEAFRHRPLGVAGPFTFVAADALSMKVREGGPV
+VNAVVLLATGVNADGHREVLGLRVATSETGAAWNEFFADLVARGLAGLRLVTSDAHTGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKNMWPAVKAMLHSVYDQPDAASVHAQFDRLLD
+YVSEKL--------------PTV----AEHLDAARADILAFTTFPKDVWTQVWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVTNT
+GDEVDPDTELTLGLS-------------A
+>KBS0714_MOLHKGIG_00174
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVQDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDSVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_00589
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVQDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDSVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_00602
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEQVEAFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHPGLK
+DAIAANLPGAVWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAAGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVSNT
+GSEVNPDTAPALEFS-------------A
+>KBS0714_MOLHKGIG_00603
+MTAPHILDPAGLLGEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPSSSRTAQR
+NGYRHRDLDTRVGTLDVAIPKLRSGTYFPDWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGVNALSKSQVSRMATELDEQVEAFRHRPLGVAGPFTFVAADALSMKVREGGRV
+VNAVVLLATGVNADGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHTGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKNMWPAVKAMLHSVYDQPDAASVHAQFDRLLD
+YVSGKL--------------PTV----AEHLDAARADILAFTTFPKDVWTQVWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVTNT
+GDEVDPDTELTLGLS-------------A
+>KBS0714_MOLHKGIG_00623
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVTDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDAVGIFPNRDAVIRLVGAVLAEQTDEWAEGRRYLGLELLARCSNQDPDTPS
+TTGASAEVMPTL----------------A
+>KBS0714_MOLHKGIG_00713
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVQDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDSVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_01070
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEQVEAFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHPGLK
+DAIAANLPGAVWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAAGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVSNT
+GSEVNPDTAPALEFS-------------A
+>KBS0714_MOLHKGIG_01202
+MTAPHILDPAGLLSEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPTRSAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEHVESFRHRPLDEAGPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGMRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHAGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDATAVNAQFDRLLD
+YVSEKL--------------PAV----AEHLGDARADILAFTTFPKDVWTQVWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTPVEDT
+GSEVGTDTDTALELS-------------A
+>KBS0714_MOLHKGIG_01394
+MTAPHDIDPQAFLSDLLTQASPDLMRQMLTTFINALLSAEADSVCGAAYGARSDERTNRR
+NGYRHRDLDTRAGTIDVAIPKLREGTYFPDWLLERRRRAEAALTTVVATCYLLGVSTRRM
+DKLVQTLGITGLSKSQVSEMSKDLDAQVEAFRTRPL-DAGPYRFVAADALVLKVREHGRV
+VKVAAMVATGINNDGYREILGLQLGTAETREGWLGFFRDLAARGLSGVELITSDAHAGLV
+EAAGAVFGTAQWQRCRTHYAANLMAVCPKSQWPAVKALLHSVYTQPDVEAVIAQYEHMID
+SLATHL--------------PAA----AEHLEGARDEVLTFTKFPKEVWKKIWSNNPNER
+LNKEIRRRTDVVGIFPSRVEVIRLLGAVLAEQHDEWTESRRYMSLELLTAT-DTMLAEAA
+AKAAAEQA--ALQVSDTMTDDPGHAALAA
+>KBS0714_MOLHKGIG_01399
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVQDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDSVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_01504
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEQVEAFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVAGAWPGSGWSPLMPTPGSR
+TPSPRTCP----VRCGNAAAPT--------------------------------------
+------------------------------------------------------------
+-----TRRT---------------------------------------------------
+-----------------------------
+>KBS0714_MOLHKGIG_01505
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+-----------------------MGITPKSMWPAVKAMLHSGYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAAGIFPNRAAIVRLVGAVLAEQTD---EGPRAVATRALGAT-RACC----
+-----------------------------
+>KBS0714_MOLHKGIG_02030
+MTAPHILDPAGLLSEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPTRSAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEHVESFRHRPLDEAGPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGMRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHAGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDATAVNAQFDRLLD
+YVSEKL--------------PAV----AEHLGDARADILAFTTFPKDVWTQVWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTPVEDT
+GSEVGTDTDTALELS-------------A
+>KBS0714_MOLHKGIG_02064
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFSATGL------------------------
+------------------------------------------------------------
+-----------WAR----------------------------------------------
+------------------------------------------------------------
+---------------PARS-------------------------------C-SSPPTP--
+-----------------------------
+>KBS0714_MOLHKGIG_02065
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------MFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVHAQFERLLD
+YVQDRL--------------PAV----AAHLDAARQDILAFTSFPRDVWCQIWSNNPAER
+LNREIRRRTDAVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_02226
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+INAVAMVATGVNADGRREVLGLRVATTETGAAWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVQAQFERLLD
+YVQDRL--------------PAV----AGHLDAAREDILAFTSFPRDVWSQIWSNNPAER
+LNREIRRRTDSVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_02229
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGQASQSRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVHAQFERLLD
+YVQDRL--------------PAV----AAHLDAARQDILAFTSFPRDVWCQIWSNNPAER
+LNREIRRRTDAVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_02231
+------------------------------------------------------------
+---------------------------------------------MVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVHAQFERLLD
+YVQDRL--------------PAV----AAHLDAARQDILAFTSFPRDVWCQIWSNNPAER
+LNREIRRRTDAVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_02232
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPN-----------------------GCSS---
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------AAN-------------------------GPS----------
+------------------------------------------------------------
+---------------PH-------------------------------------------
+-----------------------------
+>KBS0714_MOLHKGIG_02266
+MTAPHIVDPERLLREALGEASPDLLRHLLQTVINALLSADADAVCGAEYGKPSEHRTAQR
+NGYRHRPLDTRAGTIDVAIPKLRAGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVRQLGIDSLSKSQVSRMAQELDEHIEAFRHRPLGEAGPFVFLAADALTMKVREGGRV
+VNAVAMVATGVNADGRREVLGLRVATTESGAGWNEFFADLVARGLAGVALVTSDSHRGLV
+EAVAANLPGAVWQRCRTHYAANLMAVTPKSMWPAVKAMLHSVYDQPDGPAVHAQFERLLD
+YVQDRL--------------PAV----AAHLDAARQDILAFTSFPRDVWCQIWSNNPAER
+LNREIRRRTDAVGIFPNRDAVVRLVGAVLAEQTDEWAEGRRYLGLELLARC-REPLTTEQ
+ETVMSTEVMPTLQ---------------T
+>KBS0714_MOLHKGIG_02271
+MTAPHIVDPAGLLGEALSEASPDMMRHLLQTMINTLLCADADAVVGAEWGKPSRDRTAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEQVEAFRHRPLGEAGPFTFVAADALTMKVREGGRV
+VNAVVLIATGVNGDGHREVLGLRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHPGLK
+DAIAANLPGAVWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDAASVNAQFDRLLD
+YVSEKL--------------PVV----AEHLDAARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAAGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTTVSNT
+GSEVNPDTAPALEFS-------------A
+>SA211_MHAAABBN_01126
+MTAPHDIDPQAFLSDLLTQASPDLMRQMLTTFINALLSAEADSVCGAAYGARSDERTNRR
+NGYRHRDLDTRAGTIDVAIPKLREGTYFPDWLLERRRRAEAALTTVVATCYLLGVSTRRM
+DKLVQT------------------------------------------------RHHGPV
+-----------------EIAGLR-------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+---------------------------------DE-------------------------
+-----------------------------
+>SA211_MHAAABBN_01127
+------------------------------------------------------------
+------------------------------------------------------------
+-------------------MSKDLDAQVEAFRTRPL-DAGPYRFVAADALVLKVREHGRV
+VKVAAMVATGINNDGYREILGLQLGTAETREGWLGFFRDLAARGLSGVELITSDAHAGLV
+EAAGAVFGTAQWQRCRTHYAANLMAVCPKSQWPAVKALLHSVYTQPDVEAVIAQYEHMID
+SLATHL--------------PAA----AEHLEGARDEVLTFTKFPKEVWKKIWSNNPNER
+LNKEIRRRTDVVGIFPSRVAVIRLLGAVLAEQHDEWTESRRYMSLELLTAT-DTMLAEAA
+AKAAAEQA--ALQVSDTMTDDPGHAALAA
+>TT9_LFPAFLNI_01344
+MTAPHDIDPQAFLSDLLTQASPDLMRQMLTTFINALLSAEADSVCGAAYGARSDERTNRR
+NGYRHRDLDTRAGTIDVAIPKLREGTYFPDWLLERRRRAEAALTTVVATCYLLGVSTRRM
+DKLVQTLGITGLSKSQVSEMSKDLDAPVEAFRTRPL-DAGPYRFVAADALVLKVREHGRV
+VKVAAMVATGINNDGYREILGLQLGTAETREGWLGFFRDLAARGLSGVELITSDAHAGLV
+EAAGAVFGTAQWQRCRTHYAANLMAVCPKSQWPAVKALLHSVYTQPDVEAVIAQYEHMID
+SLATHL--------------PAA----AEHLEGARDEVLTFTKFPKEVWKKIWSNNPNER
+LNKEIRRRTDVVGIFPSRVAVIRLLGAVLAEQHDEWTESRRYMSLELLTAT-DTMLAEAA
+AKAAAEQA--ALQVSDTMTDDPGHAALAA
+>TT9_LFPAFLNI_01996
+MTAPHDIDPQAFLSDLLTQASPDLMRQMLTTFINALLSAEADSVCGAAYGARSDERTNRR
+NGYRHRDLDTRAGTIDVAIPKLREGTYFPDWLLERRRRAEAALTTVVATCYLLGVSTRRM
+DKLVQTLGITGLSKSQVSEMSKDLDAQVEAFRTRPL-DAGPYRFVAADALVLKVREHGRV
+VKVAAMVATGINNDGYREILGLQLGTAETREGWLGFFRDLAARGLSGVELITSDAHAGLV
+EAAGAVFGTAQWQRCRTHYAANLMAVCPKSQWPAVKALLHSVYTQPDVEAVIAQYEHMID
+SLATHL--------------PAA----AEHLEGARDEVLTFTKFPKEVWKKIWSNNPNER
+LNKEIRRRTDVVGIFPSRVAVIRLLGAVLAEQHDEWTESRRYMSLELLTAT-DTMLAEAA
+AKAAAEQA--ALQVSDTMTDDPGHAALAA
+>TT9_LFPAFLNI_02197
+MTAPHILDPAGLLSEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPTRSAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEHVESFRHRPLDEAGPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGMRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHAGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDATAVNAQFDRLLD
+YVSEKL--------------PAV----AEHLGDARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTPVEDT
+GSEVGTDTDTALELS-------------A
+>TT9_LFPAFLNI_02214
+MTAPHILDPAGLLSEALSEASPDMMRHLLQTMINTLLSADADAVVGAEWGKPTPTRSAQR
+NGYRHRDLDTRVGTVDVAIPKLRSGTYFPEWLLERRKRAESALITVVADCYLAGVSTRRM
+DKLVKTLGINALSKSQVSRMAADLDEHVESFRHRPLDEAGPFTFVAADALTMKVREGGRV
+VNAVVLLATGVNGDGHREVLGMRVATSETGAAWNEFFADLVARGLAGVRLVTSDAHAGLK
+DAIAANLPGATWQRCRTHYAANLMGITPKSMWPAVKAMLHSVYDQPDATAVNAQFDRLLD
+YVSEKL--------------PAV----AEHLGDARADILAFTTFPKDVWTQIWSNNPAER
+LNREIRRRTDAVGIFPNRAAIVRLVGAVLAEQTDEWAEGRRYLGLEVLARC-RLTPVEDT
+GSEVGTDTDTALELS-------------A
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000005.fa

@@ -0,0 +1,184 @@
+>AS2_ACLBLIBL_01282
+MSHANAALTPRHRLIVGRLVVDDGWPISEVAARFQVSWPTVKRWADRYRTG--EPMQDRSSRPHHSPNKTNQQTARRCVR
+LR-LRLREGPVQLASRLG-------IAPSTVHRILTDVHLNRLSHVD----RATGEPV--RRYEHDHPGSMLHVDVKKLG
+NIPDGGGWRYVGRRQGDKNRAATPDK--PKNKHYDPLMGMAYVHTVIDDHSR--VAYTEIHDDETARTATAVLIRAVE--
+-WFNARGVTV--------ERVLSDNGGAYRSHLWRDTCAELGIRHKRTRPYRPQTNGKIERFHRTLADGW-----AYARC
+YTSE-------AERRGELDDWLHYYNHHRPHTACGNLPPFSRL-------------------INVS--------------
+-------------------------------------------GQYS---------------------------------
+------------------------
+>AS2_ACLBLIBL_02274
+MSHANAALTPRTRLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTSPAVVKQIVA
+AR-WRQRLGPAQIASELG-------IPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDAYTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYARF
+YSSE-------TERRAALPGWLHFYNHHRVHSAIGATPA-TRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00226
+MSHANAALTPRARLRLAKLIVDEHWAVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPATMPTRTSPAVVKQIVA
+AR-RRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00227
+M----------------------------------------------------------------------------VVQ
+LR-TVEKWGPARIAGHLSTVGGSINISPATVWRILNRNGISRLRDLD----MPTGESKRPRRYEHAAPGDMIHVDVKKVG
+RIPEGGGWAVHGRG---TEEALASRRVASR------RPGYVYIHAAVDDHSR--LAYAEVHPDERAGTAAAFWLRAVL--
+-FYREHGITT-------FSRCLTDNGPAYRSKVFNDALAGTGTAHKYTRPHTPRTNGKVERFNRTMKEEW-----LYVRA
+YASD-------GERTAALAAFLNTYNHDRPHSSLGNKPPASRVPITSYRVQPQPKV------LDVPQI----------EG
+L------------------------------------------GHEP-----------------TLFDLL----------
+------------------------
+>KD337_NAFOICDF_00312
+MSHANAALTPRARLRLAKLIVEEHWAVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPATMPTRTSPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00315
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPAQIASELG-------IPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFARLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYARF
+YGSE-------SERRSALPGWLHFYNHHRHHSAIGAPPI-SRID------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00448
+-------------------------------------------------------MVDRSSRPATMPTRTSPAVVKQIVA
+AR-RRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHS---------------------------------
+------------------------
+>KD337_NAFOICDF_00627
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPATMPTRTPPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00631
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHI---------------------------------
+------------------------
+>KD337_NAFOICDF_00641
+MSHADAALTPRHRLKVARLVVDDGWPISEAAARFQVSWPTVKRWVDRYLSG--EPMSDRSSRPKSSPNRTPRVVAKRCVS
+LR-MRLREGPVQLAARLG-------IAPSTVHRILTTARMNRLSYVD----RATGEPI--RRYEHPHPGSLVHVDVKKLG
+NIPDGGGWRYVGRLQGGRNRAATPDK--PRNQYGGPKLGYAFVHTVIDDHSR--VAYTEVHDDETAITAVAVLHRAVE--
+-WFADLGVTI--------ERVLSDNGGAYRSHLWRDTCEALSITPKRTRPYRPQTNGKVERFHRTMADGW-----AYARC
+YTSE-------AERRGALSGWLHQYNQHRPHTACSNQPPFSRL-------------------INVP--------------
+-------------------------------------------EQYT---------------------------------
+------------------------
+>KD337_NAFOICDF_00645
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPAQIASELG-------IPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFARLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYARF
+YGSE-------SERRSALPGWLHFYNHHRHHSAIGAPPI-SRID------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_00652
+MSHPNAALTPRHGLLVGRLVVDDGWPISEVAARFQVSWPTVKRWADRYRTG--QPMQDRSSRPHHSPNKTSAKTTRRCIQ
+LR-LRLREGPVQLACRLG-------IAPSTVHRILTDAHLNRLSHVD----RATGEPV--RRYEHDHPGAMLHVDVKKLG
+NIPDGGGWRYVGRRQGEKNRAATPGK--PRNKYRDPLMGKAYVHTVIDDHSR--VAYAEIHDDETAITATAVLVRAVE--
+-WFNARGVTV--------ERVLSDNGGAYKSHLWRDTCVELGIKHKRTRPYRPQTNGKIERFHRTLADGW-----AYARC
+YTSE-------DERPGELEGWLHYYNHHRPHTACGDQPPFSRL-------------------TNVP--------------
+-------------------------------------------GQYT---------------------------------
+------------------------
+>KD337_NAFOICDF_00678
+MD-------ASERWRILRLHVEDAIPLATLARSTGVTERTLQRWLARYRTGGYAALAD-DARADHGVRRTAPELVRLVEG
+LALTKPRPSIATIHRQVGVHCAERGLPSPSYSAV--RSIVNGLDPGMVTLYRDKHELL--LRRRADRPNAIWQADHTMLD
+LLIVG-----------------------PNGK-----PARPWLTVILDDYSRAICGYMVFLGAPSAANTALALRQAIWHK
+P-------EPDWPVCGIPDVLYTDHGSDFTSHRLGDTAAVLHLRIIHSQVARPQGRGKIERFFGTINTELLPTLPGHFAA
+GSSAPTPALDLGGVDSAISTFIRSY-NARTHRELRTSPLHAWIADGWLPRLPESLEQLDGFLLTVPTTRVVQRDGIHFEG
+LRYTAATLAPFVGSTVSVRYDPRDVTEIRVFHRDVFLCTAISTEHQTETISLKQIQAARNAHRRALRGQIERIAIVNPKL
+DDTTTPAAVETDRPRLKTYEEDRS
+>KD337_NAFOICDF_00751
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_01361
+MTHLNAALTPRHRLKVARLVVEDGHPISEVAARFQVSWPTVKRWVDRYLAG--ESMNDRSSRPKSSPKKTNKAVTKRCVS
+LR-MRLREGPIQLAARLG-------IAPSTVHRILTAARLNRLSYVD----RATGEPV--RRYEHPHPGSLVHVDVKKIG
+NIPDGGGWRYVGRRQGQKNRAATPDK--PKNKWHSPKLGYAFVHTVIDDHSR--VAYTEVHDDETAITAVAVLHRAVE--
+-WFAERGVTI--------ERVLSDNGGAYRSYLWRDTCEALSIRPKFTRPYRPQTNGKVERFHRTMGDGW-----AYARC
+YTSE-------QERRDALPDWLHHYNQHRPHSACGNQPPFSRL-------------------INVP--------------
+-------------------------------------------GQYN---------------------------------
+------------------------
+>KD337_NAFOICDF_01794
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_01820
+MSHANAALTPRHRLKVAQLVVDDGWPISEVAARFQVSWPTVKRWADRHRAG--ESMQDRSSRPHHSPNKTSPTVTRRCIQ
+LR-LRLREGPVQLACRLG-------IAPSTVHRILTDAHLNRLSHVD----RATGEPV--RRYEHDHPGAMLHVDVKKLG
+NIPDGGGWRYVGRRQGEKNRAATPGK--LRSKYSDPLMGKAYVHTVIDDHSR--VAYAEIHDDETAVTASAVLVRAVE--
+-WFNRRGVTV--------ERVLSDNGGAYRSHLWRDTCHELGIKHKRTRPYRPQTNGKIERFHRTLADGW-----AYARC
+YTSE-------AERRGELDGWLHYYNQHRPHTACGNQPPFSRL-------------------TNVP--------------
+-------------------------------------------DQYI---------------------------------
+------------------------
+>KD337_NAFOICDF_01832
+MSHKNAALTPRHRLKVARLVVEDGWPISEIAARFQVSWPTVKRWVDRYLAG--ESMEDRSSRPRVSPNKTPKTVTKRCVS
+LR-MRLREGPVQLAARLG-------IAPSTVHRILTTARLNRLSYVD----RATGEPI--RRYEHPHPGSLVHVDVKKLG
+NIPDGGGWRYVGRLQGERNRAATPGK--PKNKWHNPKLGYAFVHTVIDDHSR--VAYTEVHDDETAITAVAVLHRAVE--
+-WFANRGVTI--------ERVLSDNGGAYRSHLWRDTCD-----------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+------------------------
+>KD337_NAFOICDF_01835
+MSHANAALTPRARLRLAKLIVDEHWAVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPATMPTRTSPAVVKQIVA
+AR-RRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHI---------------------------------
+------------------------
+>KD337_NAFOICDF_01890
+MSHANAALTPRARLRLAKLIVDEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPATMPTRTPPAVVKQIVA
+AR-RRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFARLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWLHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHT---------------------------------
+------------------------
+>KD337_NAFOICDF_02162
+MSHANAALTPRARLRLAKLIVEEHWPVATAAKMFMVSPPTARKWATRFRAEGPAGMVDRSSRPSTMPTRTPPAVVKQIVA
+AR-WRRRLGPVQIASELG-------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHI---------------------------------
+------------------------
+>KD337_NAFOICDF_02206
+--------------------------------------------------------------------------------
+-------------------------MPASTVHAVLVRCRINRLARLD----RVTAEPI--RRYEHPHPGSLIHVDVTKFG
+RIPDGGGHRFVGRQQGMKHRAATSDREGTRDARYQPRLGVGFLHTVIDDHSR--FAYVEMHSDERSQTAIAVLRRAVA--
+-HFAQLGVEV--------ERVLSDNGSAYRSHAWRDACTELGIKPKRTRPYRPQTNGKIERFHRTLADGW-----AYAKF
+YGSE-------TERRAALPGWVHFYNHHRVHSAIGAAPA-SRL-------------------NNLP--------------
+-------------------------------------------GHHS---------------------------------
+------------------------
+>SA211_MHAAABBN_01778
+MDGDQDEMAEQARLRIGRLAEHDPVGLAEAAMELGISRRRVYVLLERYRRG--SGLVTRSDGGKGGGRLTEPQIIRELVC
+QRLTRQKRSIASLHREITRACAVQGLPAPARNTV--AARIARMNPVEVGRRREGAESVRPLQSAGDEVPVVVQIDHTVMD
+LIVVD-----------------------DRDR--QP-IGRPYLTVAIDVCSRCLVGMVVTLEPPSAVSVGLCLAHAAGDK
+RWLERLGIDAAWPMSGKPKALYVDNAREFKSEALTRGCDQHGISLDYRPLGRPHYGGIVERVIGTAMRQILPSNPVERGA
+YDAEKMAALTIAELERWLVLAVATY-HDTVHSTLGQTPAGRWVESVAATSTPMTTANPTAFLVDFLPVRKLTRTGFVLDH
+VHYFANALKPWIARREAIRRDPRDISRIWVLDPEALSNPAVSVWEHRQALARLRERGATEVDESGLFRMIEQMRTISETA
+QKTTKPPVVPTDLDVVARFGEIEQ

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000006.fa

@@ -0,0 +1,52 @@
+>AS2_ACLBLIBL_01213
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>KBS0714_MOLHKGIG_00158
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>KBS0714_MOLHKGIG_01033
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKAEDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>KBS0714_MOLHKGIG_01293
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>KBS0714_MOLHKGIG_01383
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWR------------------KQNATLKRLLAEAELEKAALKELAEGNF
+>KBS0714_MOLHKGIG_02076
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>SA211_MHAAABBN_01016
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>SA211_MHAAABBN_01103
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>SA211_MHAAABBN_01111
+MRVVLLPAVADRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>SA211_MHAAABBN_01115
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>SA211_MHAAABBN_02022
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_00589
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_00591
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_01251
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_01338
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_01886
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+>TT9_LFPAFLNI_02204
+MRVVLLPAVAGRETGQIMTNSRKRHTPEQVVRKLGQADRMLADGQDVAAVCRELGVSEQT
+YYRWRNQYGGLKADDAKRLKELEKQNATLKRLLAEAELEKAALKELAEGNF
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000008.fa

@@ -0,0 +1,91 @@
+>KBS0714_MOLHKGIG_00711
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>KBS0714_MOLHKGIG_01398
+MEGS---------------------------------------------------LEGSH
+GDRVRLEDGRGHRGGLHHYPGLNSFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>KBS0714_MOLHKGIG_01502
+------------------------------------------------------------
+------------------------------------------------------------
+----------------------MAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>KBS0714_MOLHKGIG_02225
+M-----------------------------------------------------------
+--------------------------LWK-------------------------------
+----------------------------------VRSKAP--------------------
+-----------------TVTASVSKMVVATGEGY--TTIRDSTPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>KBS0714_MOLHKGIG_02227
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTVKSLEV--------
+-----------------------V
+>SA211_MHAAABBN_00092
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>SA211_MHAAABBN_00343
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>SA211_MHAAABBN_01013
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>SA211_MHAAABBN_01394
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>SA211_MHAAABBN_02284
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>TT9_LFPAFLNI_00606
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>TT9_LFPAFLNI_01016
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPIADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>TT9_LFPAFLNI_01158
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPIADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>TT9_LFPAFLNI_01349
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+>TT9_LFPAFLNI_02164
+MSIHTPNTAAPALPADLEALLRQLKMPHARGIAAEVLATARAQRWEPAEVLKALLVEETT
+GRARSMLAARRKAAG---FPTGKTFTTWDPGASSIPAPTQQSLRTLEWLSRRENLVVCGP
+SGTGKTFFLEALGQQAVEEGKRVAWFTLEDLGAMIRAHRPDDTITKAVARILRADLIVID
+DIGLLPVADDAAEGLYRIVDAAYEKRSVAISSNLHPAGFDELMPKTLATATVDRLLHHAH
+VCQTTGDSVRMTQAMAGKGVMPLN
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000012.fa

@@ -0,0 +1,49 @@
+>AS2_ACLBLIBL_00720
+------------------------------------------------------------
+-----MLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPATC
+SPEDVCRYL
+>AS2_ACLBLIBL_00722
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVLDRLDFIRRGSSPM---
+---------------------------------------------------------KWC
+SG-------
+>KBS0714_MOLHKGIG_00156
+MK-------------------------------------GA---AQLDFIRRGQAVGLTL
+AQIGQVLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPATC
+SPEDVCRYL
+>KBS0714_MOLHKGIG_00159
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVL--------GPAVG---
+------------------------------------------------------------
+---------
+>KBS0714_MOLHKGIG_01075
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVLDRLDFIRRGQAVGLTL
+AQIGQVLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPATC
+SPEDVCRYL
+>KBS0714_MOLHKGIG_02063
+MRIGEVAAASGVTTKALRFYEERGLLPQADRATNGYRDYPEDTIVRLEFIRRSQVAGLTL
+AEILDILQIRDAGTAPCGHVRDQLAEHLTNLDRHIAELTALRETVAGLHGTAAAGDPAQC
+NAEVICSYL
+>KD337_NAFOICDF_02223
+MRIGEVAAASGVTTKALRFYEERGLLPQADRATNGYRDYPEDTIVRLEFIRRSQVAGLTL
+AEILDILQIRDAGTAPCGHVRDQLAEHLTNLDRHIAELTALRETVAGLHGTAAAGDPAQC
+NAEVICSYL
+>SA211_MHAAABBN_00297
+MRIGELAERAGTTAKTLRFYEEQGLLPPAERTPSGYRDYAPETAARIDFVHRGQAAGLTL
+AQIRQILDIRDDGAAPCEHVRDLLDARLAEIEQQIAQLAALRDTITELRRDAAQPDPDSC
+SADQVCRYL
+>SA211_MHAAABBN_00338
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVLDRLDFIRRGQAAGLTL
+AQIGQVLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPAMC
+SPEDVCRYL
+>SA211_MHAAABBN_00345
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVLDRLDFIRRGQAAGLTL
+AQIGQVLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPAMC
+SPEDVCRYL
+>SA211_MHAAABBN_00794
+MRIGEVARASGTTSKTLRYYEEVGLLPAADRTPAGYRDYGAEVLDRLDFIRRGQAAGLTL
+AQIGQVLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPAMC
+SPEDVCRYL
+>TT9_LFPAFLNI_01024
+------------------------------------------------------------
+-----MLDIRDRGQAPCRHVTDLLDTRLDVIDRQLAELAQLRTTIADLREDAAAGDPATC
+SPEDVCRYL
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000013.fa

@@ -0,0 +1,78 @@
+>AS2_ACLBLIBL_00706
+MMYPHVKELATDGIPVVVSVRMLKLARQPYCRWLENPLTRTDLDQAYRANALHAAHQNEK
+ALAHR-------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+SAS
+>AS2_ACLBLIBL_02276
+-MYPLVSELAADGVPVAVSLRVLKLARQPYYRWREKPVAVSEVEQAHRANALHAAHLNDP
+EFGYRLLRDEAEAAGERMAARTAWRLCRQNGWHCAFGAKRGKNGRRPGPPVHDDR-----
+----VRRDFSAEAPNRLWLTDITEHPTGEGKLYLCAIKDVHAGRIVGYSMAGRMQASLAV
+NALEQAVARRGGTDAVAGCIVHSDRGSQFRSALFQDALTAHGVIGSMGQVGAAGDNAAME
+SFFALLQKNVLDRRDWDTRDELRAGIITWIERSYHRRRRQVRLGRLTPVEYELIMDHTPA
+DPA
+>AS2_ACLBLIBL_02495
+------------------------------------------------------------
+--------------------------------------------------MHDDR-----
+----VRRDFSAEAPNRLWLTDITEHPTGEGKLYLCAIKDVHAGRIVGYSMAGRMQASLAG
+NALEQAVARRGGTDAVAGCIVHSDRGSQFRSALFQDALTAHGLIGSMGQVGAAGDNAAME
+SFFALLQKNVLDRRDWDTRDELRAGIITWIERTYHRRRRQVRLGRLTPVEYELIMDHTPA
+DPA
+>AS2_ACLBLIBL_02496
+-MYPLVSELAADGVPVAVSLRVLKLARQPYYRWRDQPVAVSEVEQAHRANALHAAHLNDP
+EFGYRLLRDEAEAAGERMAARTAWRLCRQNGWHCAFGGQARQ------------------
+----------------------------ERALYL--------------------------
+-ALP--------------CMMTASAGTSL-------------------------------
+-------------------PKLRTGCG---------------------------------
+---
+>AS2_ACLBLIBL_02615
+-MYPLVSELAADGVPVAVSLRVLKLARQPYYRWRDQPVAVSEVEQAHRANALHAAHLNDP
+EFGYRLLRDEAEAAGERMAARTAWRLCRQNGWHCAFGAKRGKNGRRPGPPVHDDR-----
+----VRRDFSAEAPNRLWLTDITEHPTGEGKLYLCAIKDVHAGRIVGYSMAGRMQASLAG
+NALEQAVARRGGTDAVAGCIVHSDRGSQFRSALFQDALTAHGLIGSMGQVGAAGDNAAME
+SFFALLQKNVLDRRDWDTRDELRAGIITWIERTYHRRRRQVRLGRLTPVEYELIMDHTPA
+DPA
+>AS2_ACLBLIBL_02636
+------------------------------------------MEQAHRANALHAAHLNDP
+EFGYRLLRDEAEAAGERMAARTAWRLCRQNGWHCAFGAKRGKNGRRPGPPVHDDR-----
+----VRRDFSAEAPNRLWLTDITEHPTGEGKLYLCAIKDVHAGRIVGYSMAGRMQASLAV
+NALEQAVARRGGTDAVAGCIVHSDRGSQFRSALFQDALTAHGVIGSMGQVGAAGDNAAME
+SFFALLQKNVLDRRDWDTRDDLRAGIITWIERAYHRRRRQVRLGRLTPVEYELIMDHTPA
+DPA
+>KD337_NAFOICDF_01887
+-MHPLVRELAVDGIPVAVTCRVLKIARQPYYRWLASPVTPAELDEAYRANALFDAHKDDP
+EFGYRFLADEAREAGESMAERTAWRICSDMGWWSAFGKKRGRNGKKPGSPVHDDLCAVTD
+EKGRIRHQFNADAVNELWIGDITEHRTGEDRLYLCAFKDVYSNRIVGYSIDSRMKSSLAV
+TALNNAVARRG---EVAGCVVHTDRGSQCRSRKFVHALNRHGMVGSMGRVGATGDNAAMA
+SFFALLQKNVLERRSWATREDLRIAIVTWIERTYHRRRRQVALGRLTPIEYEAIMTTPAS
+QAA
+>SA211_MHAAABBN_00341
+-----MKELAAVGIPVAVTCRVLKLSRQPYYRWLADPVTDAELAEAYRANALFDAHQDDP
+EFGYRFLVDEAKEAGEVMCERSAWRICRDNGWWSVFGKKRGKNGKKPGPPVHDDL-----
+----VERDFTAGGSNQLWLTDVTEHRTAEGKLYMCAIKDVFSGRIVGYSIDSRMKARLAV
+QALQNAVARRG---DVAGCIVHSDRGSQFRSRKFVHALNRHGLVGSMGKVGAAGDNAAME
+SFFALLQKNVLDRRSWTTRDELRIAIVTWTERTYHRRRRQARLGRLTPIEYETMMKPAVT
+LPA
+>SA211_MHAAABBN_01765
+-MYPLVSELAADQIPVAVSLRVLKLARQPYYRWRDQPVAVSEVEQAYRANALHAAHLNDP
+EFGYRLLRDEAEAAGERMAARTAWRLCRQNGWHCGFGAKRGKYGTRPGPPVHDDH-----
+----VRRDFSAEAPNRLWLTDITEHPTSEGKLYLCAIKDLYAGRIVGYSMAGRMQASLAV
+NALEQAVARRGGTDAVAGCIVHSDRGSQFRSALFQDALTTHGLIGSMGQVGAAGDNAAME
+SFFALLQKNVLDRRDWDTRDELRAGIITWIERTYHRRRRQVRLGRLTPVEYELIMDHTPA
+DAA
+>TT9_LFPAFLNI_00898
+-MYPLVRELAVDGIPVAVTCRVLKIARQPYYRWLASPVTPAELDETYRANALFDAHKDDP
+EFGYRFLADEAREAGELMAERTAWRICSDMGWWSAFGKKRGRNGKKPGSPVHDDLCAATD
+EKGRIWHQFNADAVNELWIGDITEHRTGEGRLYLCAFKDVYSNRIVGYSIDSRMKSSLAV
+TALNNAVARRG---EVAGCVVHTDRGSQFRSRKFVHALNRHGMVGSMGRVGAAGDNAAME
+SFFSLLQKNVLDRRSWATREDLRIAIVTSIERTYHRRRRQAALGRLTPIEYEAIMTTPAS
+QAA
+>TT9_LFPAFLNI_01544
+MTYPLVAELADAGILVTVSCRVLKLARQPYYRWRNAPVRDADMLRAYRINALHDAHHDDP
+TFGYRYLADEARRAGWRMSRRTAWKLCSQAGILSSAQRRRRGKGKKTGPPVFDDH-----
+----VQRVFRADAPNRLWLTDITEHRTSEGKLYCCAIKDVFSNRIVGYSISDRMTAKLAV
+DAVRNAVARRG---EVAGCILHADRGSQFRSRAMARELRRHDMVGSMGRVGAAGDNAAME
+SFWSLLQTNVLNQQRWTTRQELRLVIVVWIERKYHRQRAQDILGGLTPIEFEAKLAEPHT
+LAA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000014.fa

@@ -0,0 +1,101 @@
+>AS2_ACLBLIBL_00723
+MTATANSRSYDLAMIGSGGAAFAAAIRATSLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPLPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTRGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>KBS0714_MOLHKGIG_00160
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPFPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTRGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>KBS0714_MOLHKGIG_01074
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPFPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTRGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>KBS0714_MOLHKGIG_02060
+MNEAVP--HFDLAIIGSGGGAFAAAIRATNLDKRVVMIERGTVGGTCVNTGCIPSKALLA
+AAEARHTAQDAG-RFPGLT-ATAGPVDMEALIAGKRALVENVRSDKYVDLVADYGWELRH
+GNAVFTGTAADPALEVTAQDGTRETITAAHYLVATGSTPWAAPINGLDTVDYLTSTTAME
+LDEVPESLLVIGGGYVALEQAQLFARLGSKVTMLVRSRLASGEEPEASRALMSVFANEGI
+RVIRRSTVSSITQD-TDGGIAAQADIAGGRETLRASKVLVATGRRPVTDGLNLAGVSVKT
+GDKGEVVVEDTLVSSNPRVWAAGDVTGHPEYVYVAASHGTLMVDNAFSDAGRAVDYSHLP
+RVTFTSPNLAVVGMTDKQARDAGIRCECRVVPLEYIPRAVVNRDTRGFIKMVADADTGRI
+VGITAVAKEAGDLAATGVYILQAGMTVDQVANLWSPYLTMAEGIKIVAQSFKTDVSKLSC
+CAA
+>KD337_NAFOICDF_02220
+MNEAVP--HFDLAIIGSGGGAFAAAIRATNLDKRVVMIERGTVGGTCVNTGCIPSKALLA
+AAEARHTAQDAG-RFPGLT-ATAGPVDMEALIAGERALVENVRSDKYVDLVADYGWELRH
+GNAVFTGTAADPALEVTAQDGTRETITAAHYLVATGSTPWAAPINGLDTVDYLTSTTAMD
+LDEVPESLLVIGGGYVALEHAQLFARLGSKVTMLVRSRLASGEEPEASRALMSVFANEGI
+RVIRRSTVSSITQD-TDGGIAAQADIAGGRETLRASKVLIATGRRPVTDGLNLAGVSVKT
+GDKGEVVVEDTLVSSNPRVWAAGDVTGHPEYVYVAASHGTLMVDNAFSDAGRAVDYSHLP
+RVTFTSPNLAVVGMTDKQARDAGIRCECRVVPLEYIPRAVVNRDTRGFIKMVADADTGRI
+VGITAVAKEAGDLAATGVYILQAGMTVDQVANLWSPYLTMAEGIKIVAQSFKTDVSKLSC
+CAA
+>SA211_MHAAABBN_00298
+MPT-----KYDLAIIGSGGGAFAAAIRATTLGKSVVMIERGTLGGTCVNTGCVPSKALIA
+AADARHSAADAADRFPGIA-TTAGPVDMPALIAGKQALVESLRGEKYADVADSYGWAVRR
+GDAAFAGTPDAPVLQVAGDDGSTETIEAGHFLVATGSRPWAPPIDGLDETGYLTSTTAME
+LTELPESLLVLGGGYVALEQAQLFARLGSQVTVLVRSRLASKEEPEVSRTLEEVFADEGI
+RVVRRALPTRVSRDAATGQAVVTADVAGGREEFRADQVLVALGRRPVTDGLGLDRVGVET
+GDLGEVVVSDRMQSSHPRIWAAGDVTGHPEFVYVAAHHGTLVAENAFADADRAVDYARLP
+RVTFTGPAIGAVGMTEKDVVAAGIRCDCRVLPLHHVPRALVNRDTRGFVKIVVDADTGKI
+LGITAVAKDAGELAAAGVHVL--GKTVAEVADAWAPYLTMAEGIRIAAKAFTTDPSLLSC
+CA-
+>SA211_MHAAABBN_00337
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPFPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTCGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>SA211_MHAAABBN_00346
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPFPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTRGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>SA211_MHAAABBN_00793
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPLPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDSHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTCGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+>TT9_LFPAFLNI_01023
+MTATANSRSYDLAMIGSGGAAFAAAIRATNLGRRVVMIERGTVGGTCVNTGCVPSKALLA
+TAEARHVTLDAS-RFPGLPLPEVRPVDMPALIAGKDRLVGSLRGEKYLDLATEYGWDLHP
+GDATFVGTPSEPALRVTGPDGTVETVRAAHYLIATGSRPWAPPVPGLQEAGYLTSTTAME
+LDHVPESLLVIGGGYVAMEQAQLFARLGVRVTMLVRSRLASQEEPEASTALDEIFTDEGI
+QIIRGAVPSAVRRDPATGEVTVTATTTDGSQELRAAEVLVATGRRPVTATLGLDTVDVRT
+GDHGEVVVDGHLRSTNPRVWAAGDVTAHRQFVYVAAAHGALVADNALTGAGLEVDYRHLP
+RVVFTSPALAAVGMTERQASAAGIRYDSRVLSLAHVPRAIVNRDTRGFIKMVTDADTGRI
+IGITALAQDAGDLAAAGVYMLEAGMTTSQVANLWSPYLTMAEGLKLTAQAFTTDIAKLSC
+CAA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000019.fa

@@ -0,0 +1,81 @@
+>AS2_ACLBLIBL_02407
+MSIADAPQASVIPPRDPKAERRFSRVLIANRGEIAVRVVRACQDEGLTSVAVYAEPDRDALHVKLADEAVALGGETAADS
+YLLVEKILDAAERSGADAVHPGYGFLSENADFARAVEAAGLVWIGPPAEAIDRLGDKVSARQLATKVGAPLAPGTTSPVT
+GTEEVVAFADEHGLPVAIKAAYGGGGRGIKVARSREEIPELYESAVREAVAAFGRGECFVERFLDKPRHVETQCLADVHG
+GVVVMSTRDCSLQRRNQKLVEEAPAPFLTDEQNARLVESSKAILKEAGYVGAGTCEFLVGQDGTISFLEVNTRLQVEHPV
+TEEVTGIDLVREQFRLARGEALGY-EDPVVRGHSFEFRLNGEDPGRNFLPAPGRLTTFRMPSGPGVRVDTGVVEGETVSG
+AFDSMVAKLIVTGADRRQALQRAARALGEAEIAGMPSVLPFHRAVVTDPAFAPEIAGAAEPFTVHTRWIETEFANHIEPS
+EHAPADPTSREPRRTVTVEVNGKRVDVTLPTWGEALHT--ISGAAQRAGAGRRRPRGRRGAPVA-AAVSTDALTAPMQGT
+VVKVAAENGQTVAEGDLIVVVEAMKMEQPLTAHRAGVVSGLEVEPGQTVSAGTVIATIADAD
+>KBS0714_MOLHKGIG_00542
+MSIADAPQASVVPPVDPAAERRFSRVLIANRGEIAVRIIRACQDEGLTSVAVYAEPDRDALHVTLADEAVALGGETAADS
+YLVIGKILDAAERAGADAVHPGYGFLSENADFARAVTDAGLVWIGPPAEAIDRLGDKVSARQLATKVGAPLAPGTTSPVT
+GTEEVVAFADEFGLPVAIKAAYGGGGRGIKVARTREEIPEFYESAVREAVAAFGRGECFVERFLDKPRHVETQCLADVHG
+DVVVISTRDCSLQRRNQKLVEEAPAPFLTDEQNARLVESSKAILQEAGYVGAGTCEFLVGQDGTISFLEVNTRLQVEHPV
+SEEITGIDLVREQFRLARGEALGY-TDPQPRGHSIEFRLNGEDPGRNFLPAPGRLTTFRMPSGPGVRVDSGVVEGEAVSG
+AFDSMVAKLIVTGADRRQALQRAARALREAEIVGMPSVLPFHRAVVRDPAFAPEIAGSEEPFSVHTRWIETEFANRIEPS
+ALTPAEPAPREARHTVTVEVNGKRVDVTLPTWGEALHT--ISGAAQRAGAGRRRPRGKRGAPVA-AAVSTDALTAPMQGT
+VVKVAAENGQTVAEGDLIVVVEAMKMEQPLAAHRAGVVSGLEVEPGQTVTAGTVIATIADAE
+>KBS0714_MOLHKGIG_01915
+MT--TTP-----------AARPVTRVLIANRGEIAVRVARAARDHGIASIAVYSDPDADALHVAVADEAFHLPGASSADT
+YLKIDAVLDVARRAGADAVHPGYGFLSENADFAQAVIDAGMTWIGPSPDAIRALGDKITARSLAQQAGAPLVPGSDGPVP
+DAAAARAFAEEHGLPIAIKAAFGGGGRGIRVVRELGDVEDAFEATVREAVAAFGRGECFVERFLDRPRHVEAQVLADEHG
+HVAVLGTRDCSLQRRNQKLVEEAPAPFLTDEQRERIHTSAREICRAAGYTGAGTVEYLVAPDGLISFLEVNTRLQVEHPV
+TEEVFGVDLVREQFRIAAGELLSIPEDPTPRGHALEFRLNAEDPAYGFLPVPGPIDAFEAPTGPGVRMDSGVRTGSVVPG
+EYDSLLAKLIVWGEDRAQAIARARDALAELRIDGVPTVVPFHRAVLEQDAFT-----SGDRLGVYTTWIESEFAEPLAES
+PYLGAE-VPAGGRTSVTVELDGRAVRLGLPA---DLYAALLGGGGA--GA--AAPADAAGAG---KPDDDGAVASPVTGT
+LASWKVEDGAEVAEGDTVAIVEAMKMETPIRAPRAGRIQLLVAETPASVTRGQAISRLGA--
+>KD337_NAFOICDF_00880
+MSTPSTT-----------ASRPVTRVLIANRGEIAVRVARACRDHGIASIAVYSDPDAQAMHVAVADEAYALPGSTSAET
+YLDIAAVLDVARRSGADAVHPGYGFLSENADFAQAVIDAGLTWIGPSPQAIRDLGDKITARAIAQRAGAPLVPGSDGPVP
+DAAAARAFAQEHGLPIAIKAAFGGGGRGIKVVRELSEVEDAFESAVREAVAAFGRGECFVERFLDRPRHVEAQVLADEHG
+AVAVLGTRDCSLQRRNQKLVEEAPAPFLTDEQRQRIHTSAREICRAAGYTGAGTVEYLVAPDGLISFLEVNTRLQVEHPV
+TEEVFGVDLVREQFRIAAGEPLSIPEDPAPRGHAIEFRLNAEDPAHGFLPVPGPVEAFEAPTGPGVRMDSGVRTGSVVPG
+EYDSLLAKLIVVGEDRSQAIARARDALAELRIEGVPTVVPFHRAVLEEEAFT-----SAEALGVYTTWIESEFAAPLAAS
+PHLGAS-VPGGGRTTVTVEVDGRAVRLGLPA---DLHAALLGGGGARTGA--SAPAE--------QSVDEGAVTSPVTGT
+LASWKVEDGAQVAEGDTIAVVEAMKMETPVRAPRAGRVERAAGDAPAAVTRGQVLASVRA--
+>KD337_NAFOICDF_02288
+MTNASAPQASA--DIAEAPGRPFSRVLIANRGEIAVRVIRACQDEGLTSVAVYAEPDRDALHVKLADEAVALGGETAADS
+YLVIQKVLDAAERSGADAVHPGYGFLSENAEFARAVEAAGLVWIGPPADAIDALGDKVSARRIATKVGAPLAPGTTSPVN
+GTDEVVAFADEFGLPVAVKAAYGGGGRGIKVARTREEIPELYESAVREAVAAFGRGECFVERFLDRPRHVETQCLADAHG
+NVVVVSTRDCSLQRRNQKLVEEAPAPFLTDEQNTRLVESSKALLKEAGYVGAGTCEFLVGQDGTLSFLEVNTRLQVEHPV
+SEEVTGIDLVREQFRIARGEALGY-GDPEARGHSFEFRLNGEDPGRNFLPAPGTLTRFRMPSGPGVRVDAGVTEGETVSG
+AFDSMVGKLIVTGADRRQALQRAARALAEAEIAGMPSVLPFHRAVVADPAFAPELAGSEEPFAVHTRWIETEFAHQIEPT
+ALTPAAAPDRPERHTVTVEVNGKRVDVTLPTWGEAMHQ--LQGAAARAGAGRRRPRGARRAGAAPAAPGTDSLTAPMQGT
+VVKVAAQNGDRVAEGDLIVVMEAMKMEQPLTAHRAGVVSGLEVAAGDALTAGAVIAVIADAE
+>SA211_MHAAABBN_00267
+MSIADAPQASVVPPVDPAAERRFSRVLIANRGEIAVRIIRACQDEGLTSVAVYAEPDRDALHVTLADEAVALGGETAADS
+YLVIGKILGAAERAGADAVHPGYGFLSENADFARAVADAGLVWIGPPAEAIDRLGDKVSARQLATKVGAPLAPGTTSPVT
+GTEEVVAFADEFGLPVAIKAAYGGGGRGIKVARTREEIPEFYESAVREAVAAFGRGECFVERFLDKPRHVETQCLADVHG
+DVVVISTRDCSLQRRNQKLVEEAPAPFLTDEQNARLVESSKAILQEAGYVGAGTCEFLVGQDGTISFLEVNTRLQVEHPV
+SEEITGIDLVREQFRLARGEALGY-TDPQPRGHSIEFRLNGEDPGRNFLPAPGRLTTFRMPSGPGVRVDSGVVEGETVSG
+AFDSMVAKLIVTGADRRQALQRAARALREAEIVGMPSVLPFHRAVVRDPAFAPEIAGSEEPFSVHTRWIETEFANRIEPS
+ALTPAEPAP---ARRAT---------------------------------------------------------------
+-------------------------------------------------------------P
+>SA211_MHAAABBN_01611
+MT--TTP-----------AARPVTRVLIANRGEIAVRVARAARDHGIASIAVYSDPDADALHVAVADEAFHLPGASSADT
+YLKIDAVLDVARRAGADAVHPGYGFLSENADFAQAVIDAGMTWIGPSPDAIRALGDKITARSLAQQAGAPLVPGSDGPVP
+DAAAARAFAEEHGLPIAIKAAFGGGGRGIRVVRELGDVEDAFEATVREAVAAFGRGECFVERFLDRPRHVEAQVLADEHG
+HVAVLGTRDCSLQRRNQKLVEEAPAPFLTDKQRERIHTSAREICRAAGYTGAGTVEYLVAPDGLISFLEVNTRLQVEHPV
+TEEVFGVDLVREQFRVAAGEPLSIPEDPTPRGHALEFRLNAEDPAYGFLPVPGPIDAFEAPTGPGVRMDSGVRTGSVVPG
+EYDSLLAKLIVWGEDRAQAVARARDALAELRIDGVPTVVPFHRAVLEQDAFT-----SGDRLGVYTTWIESEFAEPLAES
+PYLSAE-VPAGGRTAVTVELDGRAVRLGLPA---DLYAALLGGGGA--GA--AAPAGAAGAG---KPDDDGAVASPVTGT
+LASWKVEDGAEVVEGDTVAIVEAMKMETPIRAPRAGRIQLLVAETPASVTRGQAIARLGA--
+>TT9_LFPAFLNI_00545
+MSIADAPQASVVPPVDPAAERRFSRVLIANRGEIAVRIIRACQDEGLTSVAVYAEPDRDALHVKLADEAVALGGESAADS
+YLVVGKILDAAERAGADAVHPGYGFLSENADFARAVADAGLVWIGPPAAAIDRLGDKVSARQLATKVGAPLAPGTTSPVT
+GTEEVVAFADEFGLPVAIKAAYGGGGRGIKVARTREEIPEFYESAVREAVAAFGRGECFVERFLDKPRHVETQCLADVHG
+DVVVISTRDCSLQRRNQKLVEEAPAPFLTDEQNARLVESSKAILQEAGYVGAGTCEFLVGQDGTISFLEVNTRLQVEHPV
+SEEITGIDLVREQFRLARGEALGY-TDPQPRGHSIEFRLNGEDPGRNFLPAPGRLTTFRMPSGPGVRVDSGVVEGETVSG
+AFDSMVAKLIVTGADRRQALQRAARALREAEIVGMPSVLPFHRAVVRDPAFAPEIAGSEEPFSVHTRWIETEFANRIEPS
+ALTPAEPAPREARHTVTVEVNGKRVDVTLPTWGEALHT--ISGAAQRAGAGRRRPRGKRGAPVA-AAVSTDALTAPMQGT
+VVKVAAENGQTVAEGDLIVVVEAMKMEQPLAAHRAGVVSGLEVEPGQTVTAGTVIATIADAE
+>TT9_LFPAFLNI_01835
+MT--TTP-----------AARPVTRVLIANRGEIAVRVARAARDHGIASIAVYSDPDADALHVAVADEAFHLPGASSADT
+YLKIDAVLDVARRAGADAVHPGYGFLSENADFAQAVIDAGMTWIGPSPDAIRALGDKITARSLAQQAGAPLVPGSDGPVP
+DAAAARAFAEEHGLPIAIKAAFGGGGRGIRVVRELGDVEDAFEATVREAVAAFGRGECFVERFLDRPRHVEAQVLADEHG
+HVAVLGTRDCSLQRRNQKLVEEAPAPFLTDEQRERIHTSAREICRAAGYTGAGTVEYLVAPDGLISFLEVNTRLQVEHPV
+TEEVFGVDLVREQFRVAAGEPLSIPEDPTPRGHALEFRLNAEDPAYGFLPVPGPIDAFEAPTGPGVRMDSGVRTGSVVPG
+EYDSLLAKLIVWGEDRAQAVARARDALAELRIDGVPTVVPFHRAVLEQDAFT-----SGDRLGVYTTWIESEFAEPLAES
+PYLSAE-VPAGGRTAVTVELDGRAVRLGLPA---DLYAALLGGGGA--GA--AAPAGAAGAG---KPDDDGAVASPVTGT
+LASWKVEDGAEVVEGDTVAIVEAMKMETPIRAPRAGRIQLLVAETPASVTRGQAIARLGA--

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000020.fa

@@ -0,0 +1,88 @@
+>AS2_ACLBLIBL_00405
+MSTP----HH-----------HDHPTDQTAE------HPDPNPHAGHANHTDHAAHHPADAATHGQAMPQGHAHSALDE-
+----DHQVH----DHGQHAGHS--TAMFKNRFWVSLVLSIPVVFFSHMVGQLLGYHVPEFPGSAWIAPVLGTVIYLYGGM
+PFLKGGLTELRARQPGMMLLIAMAITVAFVASWVTTLGIGDLMLDFWWELALLVVIMLLGHWMEMRALGAASSALDALAA
+LLPEEAEKVVDGDTITVPITELAVGDVVLVRAGARVPADGTILEGAAEFDEAMITGESKPVLRQAGDTVVAGTVATDNTV
+RVKVAAVGTDTTLAGIQRMVADAQASSSRAQALADRAAALLFWFALVAAIITAIVWTVMGQPTDAVTRTVTVLVIACPHA
+LGLAIPLVIALSTEKAAKSGVLIKDRMALERMRTIDVVLFDKTGTLTEGAHVVTAVTAMPGVSEAELLAVAAAAEADSEH
+PVARAIVTAAGQHPQASTLRKRGTDFSAAMGRGVRATVDGSEILVGGPNMLRELNLTVPAEITEHTASWTARGAGVLHVL
+REGSVIGAVALEDKVRPESRAAVAALHARGIKVAMITGDARQVAEAVGADLGIDEVFAEVLPQDKDTKVTELQSRGLSVA
+MVGDGVNDAPALARAEVGIAIGAGTDVAMESAGVVLASNDPRAVLSMIELSQASYTKMIQNLVWATGYNVLAVPLAAGVL
+APIGFVLSPAVGAILMSASTIVVALNAQLLRRINLDPGH--LAPLGAPRPEAALQPAT-S
+>KBS0714_MOLHKGIG_00633
+MSTP----HH-----------HDHPTDQTAE------HPDPNPPAGHANHTDHAAHHPADAAAHGQAMPQGHAHSALDE-
+----DHQVH----DHGQHAGHS--TAMFKNRFWVSLVLSIPVVFFSHMVGQLLGYHVPEFPGSAWIAPVLGTVIYLYGGM
+PFLKGGLTELRARQPGMMLLIAMAITVAFVASWVTTLGIGDLMLDFWWELALLVVIMLLGHWMEMRALGAASSALDALAA
+LLPEEAEKVVDGDTITVPITELAVGDVVLVRAGARVPADGTILEGAAEFDEAMITGESKPVLRQAGDTVVAGTVATDNTV
+RVKVAAVGTDTTLAGIQRMVADAQESSSRAQALADRAAALLFWFALVAAIITAIVWTAIGQPTDAVTRTVTVLVIACPHA
+LGLAIPLVIALSTEKAAKSGVLIKDRMALERMRTIDVVLFDKTGTLTEGAHVVTAVTAMPGVSEAELLAVAAAAEADSEH
+PVARAIVTAAGQHPQASTLRKRGTDFSAAMGRGVRATVDGSEILVGGPNMLRELNLTMPAEITEHTASWTARGAGVLHVL
+REGSVIGAVAVEDKVRPESRAAVAALHARGIKVAMITGDARQVAEAVGADLGIDEVFAEVLPQDKDTKVTELQSRGLSVA
+MVGDGVNDAPALARAEVGIAIGAGTDVAMESAGVVLASNDPRAVLSMIELSQASYTKMIQNLVWATGYNVLAVPLAAGVL
+APIGFVLSPAVGAILMSVSTIVVALNAQLLRRIDLDPEH--LAPLERPRSQAALQPAAVS
+>KBS0714_MOLHKGIG_01289
+MTDPTT--HH-----------HDHAGVATTES----GHRDDS----RAENEDHTMEH-GDHAGH----------------
+-GH-----HGG-----GHAGHGDHVGQFRRLFWINLIIAIPVVAFSPMFAMLLGYSVPSWAG--WVAAVLGSVMYAWGGT
+PFLTGAVSELKSRQPGMMLLIALGITVAFLASWAATVGLVHPELEFWWELALLIVIMLLGHWIEMRSLAQTTSALDSLAA
+LLPDEAERIEGDDVVKVDPAELRVGDVVIVRPGGSVPADGTIVDGRADMDESMITGESHPVARGEGENVTAGTVATDSGL
+RVEITATGDDTALAGINRLVAEAQGSSSRAQRIADRAAALLFWFALGAALITAVVWTLFGLPDDAVVRTITVLVIACPHA
+LGLAIPLVVSIATERAARGGVLIKDRLALESMRQVDAVLFDKTGTLTKGEPTVTGVEPTGGLNAEQLLALAASAEADSEH
+PLARSIVTAAKEKGLAV---EPASGFTSSPAVGVTATVADHEIRVGGPRLLEETGQDEIGVADE----WRAEGAIILHVL
+RDGKVIGGLKLADEVRPESRDAVDALHQLGVEVVMITGDAEAVANEVGRELGIDRVFAGVRPEDKSAKVDQLQKEGKKVA
+MVGDGVNDAPALAQADVGIAIGAGTDVAIASAGVILASSDPRSVLSVIQLSRAAYRKMRQNLWWAAGYNLLSVPLAAGVL
+APVGFVMPMSVGAILMSISTVVVALNAQLLRRIDLAPAASTRSVLEHQ-----------K
+>KD337_NAFOICDF_00711
+MTDPNSQQHHGHETDTPAHGEHHHGSVSAHASADAHGTREGQ----HTGHQGHAMDH-GQHSGH----------TGLDEH
+GGHDEHAQHGGYGDHSGHGGHGDHVGQFRRLFWINLVIAIPAVALSPMFAMLLGYEVPGWAG--WVAAALGTVMYVWGGR
+PFLTGAVSELKSRKPGMMLLIALAITVAFFASWAATLGLVHHELEFWWELALLIVIMLLGHWIEMRSLAQTTSALDSLAA
+LLPDEAERVEGENVVKVAPADLDVGDVVLVRPGGSVPADGTIVDGRAEMDESMITGESRPVSRGEGQTVTAGTVATDSGL
+RVEITATGDDTALAGINRLVAEAQNSSSRAQRIADKAAAWLFWFALGAALVTAVVWTLIGMPDEAVVRTITVLVIACPHA
+LGLAIPLVVSIATERAARGGVLVKDRLALESMRQVDAVLFDKTGTLTKGEPTVTGVEPTGELDADQVLALAASAEADSEH
+PLAKAIVTAAKDKGFAL---QQASGFSSSPAVGVTATVSGQEVRVGGPRLLEETGQHEVGTAEA----WRSEGAIILHVL
+RGGQVVGGLRLADEVRPESRYAVDALHALGVEVVMITGDAEAVANEVGKELGIDRVFAGVRPEDKSAKVSQLQEEGKRVA
+MVGDGVNDAPALAQADVGIAIGAGTDVAIASAGVILASSDPRSVLSIIQLSRRAYGKMKQNLWWAAGYNLLSVPLAAGIL
+APVGLVLPMSIGAILMSASTVVVALNAQLLRRIDLTPEASTRSVLERQ-----------K
+>KD337_NAFOICDF_02196
+MSTP----HH-----------HDHPTDQTAE------HPDPNPHAGHANHTDHAAHHPADAATHGQAMPQGHAHSALDE-
+----DHQVH----DHGQHAGHS--TAMFKNRFWVSLVLSIPVVFFSHMVGQLLGYHVPEFPGSAWIAPVLGTVIYLYGGM
+PFLKGGLTELRARQPGMMLLIAMAITVAFVASWVTTLGIGDLMLDFWWELALLVVIMLLGHWMEMRALGAASSALDALAA
+LLPEEAEKVVDGDTITVPITELAVGDVVLVRAGARVPADGTILEGTAEFDEAMITGESKPVLRQAGDTVVAGTVATDNTV
+RVKVAAVGTDTTLAGIQRMVADAQESSSRAQALADRAAALLFWFALVAAIITAIVWTAIGQPTDAVTRTVTVLVIACPHA
+LGLAIPLVIALSTEKAAKSGVLIKDRMALERMRTIDVVLFDKTGTLTEGAHVVTAVTAMPGVSEAELLAVAAAAEADSEH
+PVARAIVTAAGQHPQASTLRKRGTDFSAAMGRGVRATVDGSEILVGGPNMLRELNLTMPAEITEHTASWTARGAGVLHVL
+REGSVIGAVAVEDKVRPESRAAVAALHARGIKVAMITGDARQVAEAVGADLGIDEVFAEVLPQDKDTKVTELQSRGLSVA
+MVGDGVNDAPALARAEVGIAIGAGTDVAMESAGVVLASNDPRAVLSMIELSQASYTKMIQNLVWATGYNVLAVPLAAGVL
+APIGFVLSPAVGAILMSASTIVVALNAQLLRRINLDPGH--LAPLGAPRPEAALQPAT-S
+>SA211_MHAAABBN_01008
+MTDPTT--HH-----------HDHAGVATTES----GHRDDS----RAENEDHTMEH-GDHAGH----------------
+-GH-----HGG-----GHAGHGDHVGQFRRLFWINLIIAIPVVAFSPMFAMLLGYSVPSWAG--WVAAVLGSVMYAWGGT
+PFLTGAVSELKSRQPGMMLLIALGITVAFLASWAATVGLVHPELEFWWELALLIVIMLLGHWIEMRSLAQTTSALDSLAA
+LLPDEAERIEGDDVVKVDPAELRVGDVVIVRPGGSVPADGTIVDGRADMDESMITGESHPVARGEGENVTAGTVATDSGL
+RVEITATGDDTALAGINRLVAEAQGSSSRAQRIADRAAALLFWFALGAALITAVVWTLFGLPDDAVVRTITVLVIACPHA
+LGLAIPLVVSIATERAARGGVLIKDRLALESMRQVDAVLFDKTGTLTKGEPTVTGVEPTGGLNAEQLLALAASAEADSEH
+PLARSIVTAAKEKGLAV---EPASGFTSSPAVGVTATVADHEIRVGGPRLLEETGQDEIGVADE----WRAEGAIILHVL
+RDGKVIGGLKLADEVRPESRDAVDALHQLGVEVVMITGDAEAVANEVGRELGIDRVFAGVRPEDKSAKVDQLQKEGKKVA
+MVGDGVNDAPALAQADVGIAIGAGTDVAIASAGVILASSDPRSVLSVIQLSRAAYRKMRQNLWWAAGYNLLSVPLAAGVL
+APVGFVMPMSVGAILMSISTVVVALNAQLLRRIDLAPAASTRSVLEHQ-----------K
+>TT9_LFPAFLNI_00598
+MSTP----HH-----------HDHPTDQTAE------HPDPNPHAGHANHTDHAAHHPADAATHGQAMPQGHAHSALDE-
+----DHQVH----DHGQHAGHS--TAMFKNRFWVSLVLSIPVVFFSHMVGQLLGYHVPEFPGSAWIAPVLGTVIYLYGGM
+PFLKGGLTELRARQPGMMLLIAMAITVAFVASWVTTLGIGDLMLDFWWELALLVVIMLLGHWMEMRALGAASSALDALAA
+LLPEEAEKVVDGDTITVPITELAVGDVVLVRAGARVPADGTILEGAAEFDEAMITGESKPVLRQAGDTVVAGTVATDNTV
+RVKVAAVGTDTTLAGIQRMVADAQESSSRAQALADRAAALLFWFALVAAIITAIVWTAIGQPTDAVTRTVTVLVIACPHA
+LGLAIPLVIALSTEKAAKSGVLIKDRMALERMRTIDVVLFDKTGTLTEGAHVVTAVTAMPGVSEAELLAVAAAAEADSEH
+PVARAIVTAAGQHPQASTLRKRGTDFSAAMGRGVRATVDGSEILVGGPNMLRELNLTMPAEITEHTASWTARGAGVLHVL
+REGSVIGAVAVEDKVRPESRAAVAALHARGIKVAMITGDARQVAEAVGADLGIDEVFAEVLPQDKDTKVTELQSRGLSVA
+MVGDGVNDAPALARAEVGIAIGAGTDVAMESAGVVLASNDPRAVLSMIELSQASYTKMIQNLVWATGYNVLAVPLAAGVL
+APIGFVLSPAVGAILMSVSTIVVALNAQLLRRIDLDPEH--LAPLERPRSQAALQPAAVS
+>TT9_LFPAFLNI_01247
+MTDPTT--HH-----------HDHAGVATTES----GHRDDS----RAENEDHTMEH-GDHAGH----------------
+-GH-----HGG-----GHAGHGDHVGQFRRLFWINLIIAIPVVAFSPMFAMLLGYSVPSWAG--WVAAVLGSVMYAWGGT
+PFLTGAVSELKSRQPGMMLLIALGITVAFLASWAATVGLVHPELEFWWELALLIVIMLLGHWIEMRSLAQTTSALDSLAA
+LLPDEAERIEGDDVVKVDPAELRVGDVVIVRPGGSVPADGTIVDGRADMDESMITGESHPVARGEGENVTAGTVATDSGL
+RVEITATGDDTALAGINRLVAEAQGSSSRAQRIADRAAALLFWFALGAALITAVVWTLFGLPDDAVVRTITVLVIACPHA
+LGLAIPLVVSIATERAARGGVLIKDRLALESMRQVDAVLFDKTGTLTKGEPTVIGVEPTGGLNAEQLLALAASAEADSEH
+PLARSIVTAAKEKGLAV---EPASGFTSSPAVGVTATVADHEIRVGGPRLLEETGQDEIGVADE----WRAEGAIILHVL
+RDGKVIGGLKLADEVRPESRDAVDALHQLGVEVVMITGDAEAVANEVGRELGIDRVFAGVRPEDKSAKVDQLQKEGKKVA
+MVGDGVNDAPALAQADVGIAIGAGTDVAIASAGVILASSDPRSVLSVIQLSRAAYRKMRQNLWWAAGYNLLSVPLAAGVL
+APVGFVMPMSVGAILMSISTVVVALNAQLLRRIDLAPDASTRSVLEHQ-----------K

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000021.fa

@@ -0,0 +1,104 @@
+>AS2_ACLBLIBL_00439
+MVRRDVWPTIAGVPSLTPSSPVRSAEERTD-RGGGSRTRPL--VHADRPGIRVSPGPGRIPALDGLRGVAVLAVLVFHAW
+PALLPGGFVGVDMFFVLSGFLITTGLVRGVDGGRGLRLGPFWMRRVRRLVPSMVVALVCCTALAWLAVAEFP----AGLG
+RQWLGALTYTSNWVMILSGSDYFAAA----TPPLFEHLWSLAIEEQFYVLWPLVVA----GLLTLFWPREPTLR------
+-----GAFRADRARVLTVLALAAASAVWMAVGLRG--GAPHTRLYFGTDTHAFGLLLGAAVALMLAHTRRPEHGGAVMRN
+PPVRSAIAWGLFAALLAAFVL--VDGREDV-TYLGVLAGLSLVVTLLLFHVVQGNRQDS---------FSRAMSGDVLRW
+WGRRSYAAYLWHWPLLVILRTALPVDAPAWVDPVAAGGVLV-LTAGIADLSTRWMEEPIVQRGFRGAFAHWRAGLRTA--
+-TRGIGGKAAAGAAGLALVAVPVAAV--AAVVHSPAE--------TALQRQIAEA-------------------EAALEQ
+ARQAQAAARAEASARAEAERAGAAEEAVAKDSQEDAPGAGAGGDA-G--SAAPTASSTPSDTAAPSAGEDPAVEVAADPT
+ASAEPEPTAEPEPEPPLTGDPSVTRPAFTGAELTEPMPPSSVGPDVTLLGDS-------VALS-----AAPELLAALPGI
+AVEAEVGFQVRDAAARLAELDAAGMLTDVVVVSLGANGNA-----------ELGDWDRILAAAGPERLLVLVVPHGPMDW
+IGPAQQ----------------------------EMAEQAALHPD--RVVLADWDAASA---------HVDEW--SADGV
+HPKGN-----GQGIYARLVRLTVEARLGLR------------
+>AS2_ACLBLIBL_01839
+--------------------------------------------------------------------MAVLSVLVFHAG
+VTALPGGFVGVDVFFVISGFLITGLLLKEVDRTGRVGLAEFYARRARRILPAALAVIVLTVAAGLLV---YPVSEWTRLG
+SVAVASALSVVNWLFARESTDYFAQEEAA-SP--FQHYWSLAVEEQFYLVWPLLLILVTVGVAALRRRGAGDAAPDADAG
+ARRRPSAPVAARRVLLASA--VIGLASFVHSVSYS--ASDPGAAYFVTTTRVWELALGAGLAAALVVLPVIR--------
+PAVRTVLGWAGLGMIAVSLVL--ITGAM---AYPGSVALLPVVGSALV--ILAGAHEDGSTPGHP----ARLLATRPMQW
+VGDLSYSLYLVHWPVLTLAAWRFPDGRL----PLWLGLILAVVSVGLAWALRRWVEVPAMHGSLLAGRR------RALTR
+GGLGMAAVAAAGALVLAAG---------AA--LAPAR--------PGEESPVAGA-------------------RAVMD-
+-----------GQ-------------------------------------------------------------------
+---DPMAAL-------------AAGMR-IVPDPAVAKEDR-----------------------------SPRS-------
+------------AAGASSRTP---------------RPRA-----------WSPRRACWRTASPTRSATSGTAPC-PTSW
+TGSTRTSCWSRAPGGRPWRRTP-------RRR---------------------WPRRGGS--------------------
+------------------------------------------
+>KBS0714_MOLHKGIG_02297
+M----------------------SSDQRTA-SAPRHALPPQDGVPAVKVGTRVSRGPGRVTALDGLRGIAVLAVLVFHAW
+PTFLRGGFVGVDMFFVLSGFLITTGLVRGVDAGRGVALGTFWMKRVRRLIPAMLMALVGTTALAWLAVDEFP----AGLG
+RQWFGALTYTSNWVMILEGGDYFNRA----SPPLFEHLWSLAIEEQFYILWPLLLW----GLLLLTWPPRSTVN------
+-----SGRVADRRRILAVAVAAVASAAWMAWGSWH--GFEQARLYFGTDTHAFGLLFGACVAIGLAHVPRPEHGGPEPRT
+SATRVAVAWGAVAVLAAGFAL--VDGGHAS-TYRGVLAGLSAVVAFIVWHVVQGDRRDS---------LSRALGNGFLRW
+WGRRSYAAYLWHWPLLVIMRVMVPVDAPGWVEPVAAGAILL-LTALIADLSTRLIEEPILHEGFRGAFGRWGAAARRAFT
+GGAGPIGQLAAAATALGLVAVPAAAV--AAVVHSPAQ--------TQLEQDIAQA-------------------EESLKA
+AEAAQQA----ARESRAAEQSKRAEA-----SASASPGSAAPGDAEG--SAGATSS----------------------PG
+SSAEPSGLG--------LGDPAVTRPTYSKEQLTAALPPSELGTDVTLIGDS-------VSLS-----AAPTLMEELPGM
+LLEAEVGYQIWDAADELEKLKADGQLSDVVVVALGANGTT-----------HRGDWEKILAAVGEDRLLVLVVPHGPMDW
+IADVQV----------------------------QMAAQAKAHPD--RIVLADWDAAAKQ--------HVTDF--SADGV
+HPRAD-----GQAMYAQLVRLTIEDRLGARR-----------
+>KD337_NAFOICDF_00392
+MT-------------------VSTSDHHAARPAPRHAQAALADGPAPRTGLRVSRGPGRITALDGLRGIAVLAVLVFHAW
+PEALPGGFVGVDMFFVLSGFLITTGLVRGVDAGKGLRLPSFWMRRIRRLVPAMVVALVACTALAWLAVAEFP----TGLG
+RQWLGALTYTSNWLMIFDGGDYFDRA----SPPLFEHLWSLAIEEQFYVLWPLIIG----GLCLVVRPKRDTYA------
+-----SGRVADRRRILVVLVVALASAAGMVLGSLG--GADQTRLYFGTDTHAFGLLLGACVSMGLAHVPRPEHGGPELRT
+GPARTAAAWLAVVVLFTGFAL--VDGTQDA-TYRGVLVGLAAVVAFIVWHVAQGDRRDS---------LSRALGNPFLRW
+WGRRSYAAYLWHWPLLVIMRIVVPVDAPSWAEPVAAGAVLL-LTAGIADLSSRYFEEPILQKGFRGAFGGWGDAARRAFG
+GAFGPGGRLAAGATALALVAVPVAAV--AAVAHSPAQ--------TQLQEDIQAA-------------------EQSLQD
+AQAQQQA-QLEARRSAQAEKSKDAEA--------------------G--GAEATGS----------------------AG
+ASASPSGST--------LGDPQVTRPEFTQEELTASLPPSDVGSRTTLIGDS-------VALS-----AAPALLEEMPGI
+VVDAKVGFQIWDAADKIRAMDREGTLGDVVVLSLGANGTA-----------GRGDWDKIRQAVGPDRLLVVVVPHGPMSW
+IEDAQR----------------------------KAVEQAEAHPD--QVVLADWEAAST---------YVPGW--SADGV
+HPGHE-----GQGIYAQLIRLTVEERLGLR------------
+>KD337_NAFOICDF_02437
+M-------------------------------------------PR-----PVDTKASYFPGLDGLRALAVGLVVAYHLG
+VPGTDGGLLGVGVFFTLSGYLITSLLLRRHERHGDLDLKNFWIRRFRRLLPAVVLVLIAVLAATALV---SPDLLGARLG
+-QSVAALLYVANWHTILSGRSYFDQAEGA-GP--LDHLWSLAVEEQFYLVWPLVLL----GLLALTRRLGPDA-------
+-----------RRRVLAAATLVLGAVSFVLLAVFADPAGDSTRAYEGTDTRAGGLLWGAVLAFLWRPDRVAR-----LTG
+RASRVVVDLVGVLGLAGVLALSATTGQEDAALYTWGLAALTVATCAALLPLV-----------HPGSWVARVLGIPPLQW
+IGARSYGIYLWHMPVVAFLP-----DRVLFGQPVLRGLLIVALTLVLAALSWRLVEDPIRRHGLVAALA------RARGV
+LGVGAVAVLASGALVLTAALPQTSAQEIAA--QEPAA--------PAGD---AVA-------------------HPALD-
+-----------GRTSCTS--------------------VLHVGDSTS--LASGNTD----------------------RT
+RIADPAQRI--------TGRYEAVGVETVVEDIAGGRSTREH------IDGS-------ADLN------APEA-------
+------------VAAGVSRLDAGGC----VVVNVGLNDAA-----------TMTKDDAWDQAAARIDAVVDAADGRPVLW
+VGPAIM----------PWSSRPYYEPAGAERFTRALVDATARHPD---LRVHDWARESRS--------HP-DWYLSDDAN
+HNTEA-----GAVAKARSMAAALTAAFPAGRPASAEKVVLGE
+>SA211_MHAAABBN_01990
+M----------------------SSDQRTA-PVPRHALSPQDGVPAVKVGTRVSRGPGRVTALDGLRGIAVLAVLVFHAW
+PTFLRGGFVGVDMFFVLSGFLITTGLVRGVDAGRGVALGTFWMKRVRRLIPAMLMALVGTTALAWLAVDEFP----AGLG
+RQWFGALTYTSNWVMILEGGDYFNRA----SPPLFEHLWSLAIEEQFYILWPLLLW----GLLLLTWPPRSTVN------
+-----SGRVADRRRILAVAVAAVASAAWMAWGSWH--GFEQARLYFGTDTHAFGLLFGACVAIGLAHVPRPEHGGPEPRT
+SATRVAVAWGAVAVLAAGFAL--VDGGHAS-TYRGVLAGLSAVVAFIVWHVVQGDRRDS---------LSRALGNGFLRW
+WGRRSYAAYLWHWPLLVIMRVMVPVDAPGWVEPVAAGAILL-LTALIADLSTRLIEEPILHEGFTGAFGRWGAAARRAFT
+GGAGPIGRLAAAATALGLVAVPAAAV--AAVVHSPAQ--------TQLEQDIAQA-------------------EESLKA
+AQAAQQA----ARESRAAEQTKRAEA-----SASGAPGSAAPGDAEG--SAGATPS----------------------PG
+SSAEPSGLG--------LGDPAVTRPTYSKEQLTAALPPSELGPDVTLIGDS-------VSLS-----AAPTLLEQLPGM
+LLEAEVGYQIWDAADEIEKLKADGQLSDVVVVALGANGTT-----------HRGDWEKILAAVGEDRLLVLVVPHGPMDW
+IADVQV----------------------------QMEAQAKAHPD--RIVLADWDAAAKQ--------HVTDF--SADGV
+HPRAD-----GQAMYAQLVRLTIEDRLGARR-----------
+>TT9_LFPAFLNI_00587
+MTNPPVYPRG---------------------YRPRHAADGPDSTPA-----AARRRADWRPEIQGLRAVAVLLVVVFHIF
+TDRVSG---GVDIFLFISAFFLTGSFTRKMESGRPLAVGRYWLHVFTRLMPMAVLTILTTLVAVATV---YPLADRASWR
+TEALASALYVENWALAFNAVDYYAADNTSLSP--FQHFWSLSVQGQVFILWPLLFL----VSALVARRTGARP-------
+------------RAVLTTAFASVFVVSLLWSVTQT--SQNQAFTYFDTRARLWEFALGSLLALALPFLHLGR--------
+-RTRVFLGWAGLASMIAVGVV--VDVQG---AFPGWIALWPLMSATAV--IVAGT--SGS---HFG--VDRILASRPLTR
+LGDSAYALYLVHWPLLITYSVLTGSQKP----GAAAGVALVLVSLGTAILLSARVERPLRAWGWPQTAA-W----RSAVV
+LGACAALVVAPVTLWRGAEAAESARVLEAADRNNPGAAVLRPDYEPAGD---PGAPVLPVVEGRYPFPEYPEECDPALE-
+AQLTEV-----GAESCHV--------------------LVPQADPAGVVLMAGNSHVMQW--------------------
+---SPALRR--------LGEERRLEVVSYTRGSCLVAPMEEQ------VDDSPKCPDFLADLNLVVEHVRPDV-------
+------------VFMQGTRSTYEDE----EMLTPGMTGRMEEIAGTGAHVLALRDNPRFAAGSPTTCGTMHGVDAVTCRW
+THAVLD----------PNTS--------------PLAGLADAHPRIAQVQLNDMICPDRQCQPTVGNVHV-YW----DDN
+HLTPTYVETLAPVFIERVLAALEHDGMRLGR-----------
+>TT9_LFPAFLNI_02238
+-------------------------------------------MPAVKVGTRVSRGPGRVTALDGLRGIAVLAVLVFHAW
+PTFLRGGFVGVDMFFVLSGFLITTGLVRGVDAGRGVALGTFWMKRVRRLIPAMLMALVGTTALAWLAVDEFP----AGLG
+RQWFGALTYTSNWVMILEGGDYFNRA----SPPLFEHLWSLAIEEQFYILWPLLLW----GLLLLTWPPRSTVN------
+-----SGRVADRRRILAVAVAAVASAAWMAWGSWH--GFEQARLYFGTDTHAFGLLFGACVAIGLAHVPRPEHGGPEPRT
+SATRVAVAWGAVAVLAAGFAL--VDGGHAS-TYRGVLAGLSAVVAFIVWHVVQGDRRDS---------LSRALGNGFLRW
+WGRRSYAAYLWHWPLLVIMRVMVPVDAPGWVEPVAAGAILL-LTALIADLSTRLIEEPILHEGFRGAFGRWGAAARRAFT
+GGAGPIGRLAAAATALGLVAVPAAAV--AAVVHSPAQ--------TQLEQDIAQA-------------------EESLKA
+AQAAQQA----ARESRAAEQSKRAEA-----SASASPGSAAPGDAEG--SAGATSS----------------------PG
+SSAEPSGLG--------LGDPAVTRPTYSKEQLTAALPPSELGPDVTLIGDS-------VSLS-----AAPTLLEQLPGM
+LLEAEVGYQIWDAADEIEKLKADGQLSDVVVVALGANGTT-----------HRGDWEKILAAVGEDRLLVLVVPHGPMDW
+IADVQV----------------------------QMEAQAKAHPD--RIVLADWDAAAKQ--------HVTDF--SADGV
+HPRAD-----GQAMYAQLVRLTIEDRLGTRR-----------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000023.fa

@@ -0,0 +1,64 @@
+>AS2_ACLBLIBL_01211
+MDLQQYLQTFRKYWRSILTVLSVCVGAALVFTFLQTPKYSSTSSALIAVDTAATPGELSSGALYAERQVSSFVALADSAL
+VLDPVINELGLNVTPQALRSRVSVSAPAGTSIVDVTVTDTNAGRAAEVANAITASLKNVTSDVVPTGPDGDEIVTVTVVE
+PAAASSRPVSPRPVVNIALGLIAGVVIGLGQALVRRLLDSRIRTRDDLVEITDAPVLASVVHHKGSDRPKDEAAPAR-GT
+AWASAESYRKLRTAVGFVALGGERRSSIVVTSSVQGEGKTETSTNLAKVLAETGARVLLVDADLRRPQVGARLGLDDELG
+LSDVLTGRADLNDVLLSV--DDLSVLTAGTVPPNPSELLGSEAMAELL-ALVEAHFEYVILDAPPLLPVTDAAILSHQAG
+GAIVVARSGVARQNQLAEALSILEAADASVYGVVLNDVPVSHIDG--------------YSQYYR---------------
+-----------------------------------------------------------
+>AS2_ACLBLIBL_02417
+MNIIDFLRVLRANRLVILGCAALGLVAGLVYSLLQPTLYTATSTGFVTVQGEAT----ISGTETAQTRAQSYIPLINSRT
+VREKIAEG-GLDTAGASL----SAAVVPGSNLITVSAESEDPEQAAALANSALVATAETANGLDPTSN-----VQVTAME
+DALAPTSPTSPDYVRNMLYGLGAGLLLGLVIAVLRRILDVNVRTTTDAQVASGAGLLGAI--PLDATLKAERDAPRG-EP
+SPRAAEAVRQLRTNLRFAAVDDPPR-TIAFTSANPGEGKSTVIGSLALAVAASGQPVILIDADLRRPRQALQFGVDGRVG
+LSEVLNGDVALQDVLVPVGDHGLLLLPAGRTPPNPSEQLGSARMRDLLTALAETHM--VLVDAPPVLPVTDSTLLSTAVD
+GTVLVVRHGKARKEHVEVARDMLAGVNARVLGVVLNGTPASGVGSDY-YGGSYASKGDDYHAYYQASRDAESR-PSDEAV
+PEGPAAQR---------------------------------------------------
+>KBS0714_MOLHKGIG_00524
+MTIVDFFRLLRANLLLLLAAALVGGLLGWGYSALQPRIYASESQGFLAARAADQ--SLITSNLPAESRAQAYVALINSEA
+VRERVAQD-TGQDGDGSL----SAVLVPESSMIKVTATSTDPETAAQLANSALQATADVAADVDKNSP-----LEVVPLS
+DARVPSAPVSPDTRRNVLLGVVAGLGAGLAIAVLRRLLDVKVRSRADVKEITGAGVIGAV--PENASLT--RTGEEAVDL
+DPRAGEAIRALRTNLKFVSVDEPPR-VVSFTSADPSEGKSTVASNLARALALAGERVLVVDADLRRPRQHDLFQVAGDVG
+LSEVLAGEVQPDDALAATGIPNLTLLPAGRTPPNPSELLGSKRMRALLKLASEDFF--VIVDSPPLLPVTDGSLLATAVD
+GTVLVVRQGRTRKDHLEAAVENLAAVDAHLLGVVMNGVARSQRGGGYSYGYG-------YESTYHKSHDKYLQ-GTG---
+KGGKKSRRAAR----------AKKG----------------------------------
+>KD337_NAFOICDF_02299
+MNILDFLRVLRANRLVLLGGVVLGLLGGLVYSLLQPTLYTSTSTGFVTVAGEAS----ISGTETALTRAQSYVPLINSRT
+VREKVAES-GVDVSGSTL----SAQVVPNSNLITVTALAPDPQRAADLANTALGATAEVANSLDPTSN-----VKVTAME
+DALPPAGPSSPDHLRNALIGAGIGLLAALAVAFLRRVLDVNVRTTTDATEASGAGLLGAI--PQDGTMKAERTAPLG-VP
+SPRAAEALRQLRTNLRFAAVDDPPR-VVMVTSSNPGEGKSTVIAGLAQAVAVSGQPVILVDADLRRPRQASQFGVDGRVG
+LSEVLSGDVLLEDAVQDLG-DGLLLLPAGRTPPNPSEQLGSHRMQELLRVLAETHL--VLVDAPP----------GAAGD
+G--LHPAGGRRGRDR-------------------AGGAPRQDPEGPCGGGPGHAGQGQRPHAGRGAQRRARLRCGLGLLR
+RGLRRGRRQLRRLLPGAPGRRRRRGRDRGRHVATLIAPGGRARSSHRRRRPGDAEGPRL
+>SA211_MHAAABBN_00245
+MTIVDFFRLLRANLLLLLAAALVGGLLGWGYSALQPRIYASESQGFLAARAADQ--SLITSNLPAESRAQAYVALINSEA
+VRERVAQD-TGQDGDGSL----SAVLVPESSMIKVTATSTDPETAAQLANSALQATADVAADVDKNSP-----LEVVPLS
+DARVPSAPVSPDTRRNVLLGVVAGLGAGLAIAVLRRLLDVKVRSRADVKEITGAGVIGAV--PENASLT--RTGEEAVDL
+DPRAGEAIRALRTNLKFVSVDEPPR-VVSFTSADPSEGKSTVASNLARALALAGERVLVVDADLRRPRQHELFQVAGDVG
+LSEVLAGEVQPDDALAATGIPNLTLLPAGRTPPNPSELLGSKRMRALLKLASEDFF--VIVDSPPLLPVTDGSLLATAVD
+GTVLVVRQGRTRKDHLEAAVENLAAVDAHLLGVVMNGVARSQRGGGYSYGYG-------YESTYHKSHDKYLS-GVGSSA
+KKGRRSRRKAR----------TR-G----------------------------------
+>SA211_MHAAABBN_00256
+MNIIDFLRVLRANRLVILGCAALGLALGLLYSLLQPTLYTATSTAFVTVEGEAS----ISGTETAQTRAQSYIPLINSRT
+VRERIAAE-GLDTAGATL----SAALVPNSNLITVSAVAPDAQQAAALANGALVATADVANELDPTSN-----VKVTAME
+DALAPAAPSSPDRVRHLLYGLGAGLVLGLIVAFLRRLLDVNVRTTTDAQVAGGAGLLGAI--PLDPSMKAERTAPMA-PL
+SPRASEAVRQLRTNLRFAAVDDPPR-TIAFTSSNPGEGKSTVIGNLALTVAAAGQPVILIDADLRRPRQALQFGVDGRVG
+LSEVLNGDVALQDVLIPVGEDGLLLLPAGRTPPNPSEQLGSERMRDLLTALAETHM--VLVDAPPVLPVTDSTLLATAVD
+GTVLVIRHGKTRKEHLEVARDMLAGVNARVLGVVLNGTPASGVGSDY-YGGGYGADGGSYDAYYQAPRDAAEA-AAGTA-
+--GDASRR---------------------------------------------------
+>TT9_LFPAFLNI_00524
+MTIVDFFRLLRANLLLLLAAALVGGLLGWGYSALQPRIYASESQGFLAARAADQ--SLITSNLPAESRAQAYVALINSEA
+VRERVAQD-TGQDGDGSL----SAVLVPESSMIKVTATSTDPETAAQLANSALQATADVAADVDKNSP-----LEVVPLS
+DARVPSAPVSPDTRRNVLLGAVAGLGAGLAIAVLRRLLDVKVRSRADVKEITGAGVIGAV--PENASLT--RTGEEAVDL
+DPRAGEAIRALRTNLKFVSVDEPPR-VVSFTSADPSEGKSTVASNLARALALAGERVLVVDADLRRPRQHDLFQVAGDVG
+LSEVLAGEVQPDDALAATGIPNLTLLPAGRTPPNPSELLGSKRMRALLKLASEDFF--VIVDSPPLLPVTDGSLLATAVD
+GTVLVVRQGRTRKDHLEAAVENLAAVDAHLLGVVMNGVARSQRGGGYSYGYG-------YESTYHKSHDKYLQ-GTGTAG
+KGGKKSRRAAR----------AKKG----------------------------------
+>TT9_LFPAFLNI_00535
+MNIIDFLRVLRANRLVILGCAALGLAMGLVYSLLQPTLYTATSSAFVTVEGEAS----ISGTETAQTRAQSYIPLINSRT
+VRERIASE-GLDTAGATM----SAALVPNSNLITVSAVAPDAQQAAALANGALVATADVANELDPTSN-----VKVTAME
+DALAPATPSSPDRVRHLLYGLGAGLVLGLIVALLRRLLDVNVRTTTDAQVAGGAGLLGAI--PLDPSMKAERTAPMA-PL
+SPRASEAVRQLRTNLRFAAVDDPPR-TIAFTSSNPGEGKSTVIGNLALTVAAAGQPVILIDADLRRPRQAMQFGVDGRVG
+LSEVLNGDVALQDVLIPVGEDGLLLLPAGRTPPNPSEQLGSERMRDLLTALAETHM--VLVDAPPVLPVTDSTLLATAVD
+GTVLVIRHGKTRKEHLEVARDMLAGVNARVLGVVLNGTPASGVGSDY-YGGGYGADGGSYDAYYQAPRDAPEA-AAGTA-
+--GDTSRR---------------------------------------------------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000027.fa

@@ -0,0 +1,56 @@
+>AS2_ACLBLIBL_00171
+M-------------SALRRWSALAVLVLPVLLISIDMSVLGIAVPALSADLDPTSGQLLWIIDLYSFLLAGLLIFMGSLG
+DRIGRRRILLIGAPLFGAASLAAAFASSAEMLIAARALLGVGGATLMPSTLGLIRTIFPDRAERRTAIAVWAMAFSGGAA
+LGPVVGGILLERFWWGSVFLMNVPVMAVFLLVAPFLLPESRDPSPG---PFDPLSSVLSIAGIVGLVYALKTAAKSP---
+----DWTALAG--LVVGATALAWFIARQRRLA-HPMIDVALFRNVAFTSAVSVNVISVFAFMGLMFFLPQFLMLVQGMGP
+AEAGLWMLPLAAAAVVGTLLAPLLARVVAVRTVILTGLALVIAGFAVGTRLDGAAP-----LVAFVLLSCLFGVGVGLAE
+TLTNDVILTAAPPERAGAAAAISETGYEFGGAMGTAVLGTVGMAVYAARVQEAAGLPGLGPADAEAAAQTLAAAHRIGEG
+LPDGGARLVEVANGAFTAGMDLVA-GIGIGVAAVTLLLAWRGLRSEARVERPVED
+>AS2_ACLBLIBL_00191
+M-------------------------------VILNETIMSVALPRLMAEFTVTAATAQWLTTGFMLTMAVVIPFTGWLL
+NRMSLRAVFILAMGTFTAGTAIAGLAPTFGLLLTGRVVQAVGTAIMMPLLMTTVLNVVPLS-RRGRVMGLISIVISVAPA
+SGPAVGGVILEHLSWRWLFFTVLPIAAIALAAGAAWVRNVTEPRPV---RLDVLSGVLSAVGFASLIFGLSSIGEAAAGN
+AAMPPWI-----PVAVGVLALALFAVRQLRLKDDALLDLRTLSRPTFTVALAVMLTSMLALFGTIVLLPIYLQEVLGWTT
+QQSGLALLPGGMVMALLGYVVGHLYDRVGAPPLIVPGAVLGAAGLWGYTFLSEDSS-----AFMVVGLHVLISTGLSMLF
+SPLMTTALSALPRSLYAHGSALVSTLQQVAGAAGTALFITLLTV----------GTAS-------SVAGGLGEVASLMDG
+------VHLAFLSGALVFTVNVVAVWFVKRPA-------------------PNPL
+>AS2_ACLBLIBL_02217
+MLSGTSTTSRGTGPAPVRAWLVLCAMSMLQFFIAVDVTVVNIALPSIGADLGVAGHSLTWVVVGYTITGGGLLMLGGRIG
+DLLGRRRTLLVGTSVFGAASLLAGLAPSFPVLVAARLLQGAGEAVALPAAMATIVLLFPEGPRRSRALSVWAAVASCGLV
+LGFALSGIITAHLGWRWVFLVSVPFILVVIVTALLLVPAD-RPASGGRVRLDLPGSLLLTACPLLFVYAAVEAGEPATG-
+----LWV--SGVALLCAVLAAAGFVRVESRSP-NPLVPLTFFADRARLRANLTTMLLSGALSTSFLLFTFYLQDRLGIGP
+LGAGLTMLPLAVALIVASVLVPRLLGRWGARACVLVGLGAAAGAMGVVALVAVLGSGATWLLPAML----LIAAGMGFGL
+VGLQYIAVSGTTEEDAGIASGVQRASDQLGGAAGVAVYVGL----------------------------GFAPALHADAG
+DPFVVAAVLA------VVGLVVGAVVISRSPSTA--------------AGQPQAG
+>AS2_ACLBLIBL_02334
+MTVGAG-----------------------LLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLG
+DRIGHRRMFVVGLWIFGAASLAAAFSPSPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRERNIAIAIWGSLSIAGAA
+LGPILGGALLERFWWGSVFLINVPVVVIALVATAVIAPHN-DPDPSK--KWDLVSSLYAMVGLVGTVLVIKELAHIPQ--
+----NWVLIAG-ALASAVIGFVLFVRRQGRLE-EPLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTP
+LQAGLLVAAIALGALPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGS-----LPLLVVSFIVTGFGLGGTF
+AVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPA-------AAGESIADALGIADG
+DLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSEA-MEYAENH
+>KBS0714_MOLHKGIG_00169
+MTVGAG-----------------------LLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLG
+DRIGHRRMFVVGLWIFGAASLAAALSPNPAFLIGARALLAVGAAAMMPATLALIRLAFNDPRERNIAIAIWGSLSIAGAA
+LGPILGGALLERFWWGSVFLINVPVVVIALVATAIIAPHN-DPDPSK--KWDLVSSLYAMVGLVGTVLVIKELAHIPQ--
+----NWVLIAG-ALASAVIGFVLFVRRQGRLE-EPLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTP
+LQAGLLVAASALGALPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGS-----LPLLVVSFIVTGFGLGGTF
+AVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPA-------AAGESIADALGIADG
+DLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSEA-MEYAENH
+>SA211_MHAAABBN_00360
+MTVGAG-----------------------LLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLG
+DRIGHRRMFVVGLWIFGAASLAAAFSPNPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRERNIAIAIWGSLSIAGAA
+LGPILGGALLERFWWGSVFLINVPVVAIALVATAIIAPHN-HPDPSK--KWDLVSSLYAMVGLVGTVLVIKELAHIPQ--
+----NWVLIAG-ALASAVIGFVLFVRRQGRLE-EPLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTP
+LQAGLLVAAIALGALPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGS-----LPLLVVSFIVTGFGLGGTF
+AVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPA-------AAGESIADALGIADG
+DLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSEA-MEYAENH
+>TT9_LFPAFLNI_02010
+MTVGAG-----------------------LLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLG
+DRIGHRRMFVVGLWIFGAASLAAAFSPNPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRERNIAIAIWGSLSIAGAA
+LGPILGGALLERFWWGSVFLINVPVVAIALVATAIIAPHN-HPDPSK--KWDLVSSLYAMVGLVGTVLVIKELAHIPQ--
+----NWVLIAG-ALASAVIGFVLFVRRQGRLE-EPLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTP
+LQAGLLVAATALGALPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGS-----LPLLVVSFIVTGFGLGGTF
+AVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPA-------AAGESIADALGIADG
+DLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSEA-MEYAENH

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000028.fa

@@ -0,0 +1,56 @@
+>AS2_ACLBLIBL_00251
+MS------------------------------TSPSGSRVAE---PGAATADRGQLHRGLSQRHIMFIALGTAVGTGLFY
+GSAGGIQAAGPGVILSFLIAGAAVFLVMRALGEMTLREPVSGSFAAYASRYLGPFAGYVTGWTFVFELAVVIVADTAAIT
+AYMAFWFPEVPAWAWVAATILVVGLINFTHVGNFGEAEFWLTLVKVGAIVAMIFGGVILLFTGASTADGTQAGLANLVDH
+GGFLPHGILGVLTALTIVTFSFGGIETLGVAAGEAKNPEKVLPKAINTVPIRILLFYVLTMAVIMALVPWNQVDGKASPF
+VQIFEGLGVPFAPHLLNFVVLTAAVSAINACIYASGRLLYAMAHDGQAPRAFTHTNRGGVPWLSVAVMLGVMVLGAVLIT
+VDP-NAFSLVAGVASFAVVLTWAMIFLSHRAMRRRVAEQGAEPSPFPMPLGGVGTYLGLAFVATVVITMATI--------
+---PDSRQA-----LIIGLVWVAVLTLAWFVTGVRKAAAVHDRTGTLPVASGEEAAASHR
+>KBS0714_MOLHKGIG_00134
+MS------------------------------TSPSGSRVAE---TGAATADRGQLHRGLSQRHIMFIALGTAVGTGLFY
+GSAGGIQAAGPGVILSFLVAGAAVFLVMRALGEMTLREPVSGSFAAYASRYLGPFAGYVTGWTFVFELAVVIVADTAAIT
+TYMAFWFPGVPAWAWVAATILVVGLINFTHVGNFGEAEFWLTLVKVGAIVAMIFGGVILLFTGASTADGTQASLANLVDH
+GGFLPHGILGVLTALTIVTFSFGGIETLGVAAGEAKNPEKVLPKAINTVPIRILLFYVLTMAVIMALVPWNQVDGKASPF
+VQIFEGLGVPFAPHLLNFVVLTAAVSAINACIYASGRLLYAMAHDGQAPRAFTHTNRGGVPWLSVAVMLGVMVLGAVLIT
+VDP-NAFSLVAGVASFAVVLTWAMIFLSHRAMRRRVAEQGAEPSPFPMPLGGVGTYLGLAFVATVVITMATI--------
+---PDSRQA-----LIIGLVWVAVLTLAWFVTGTRTSAAAHDRTGTLPVVRTRQS--HED
+>KD337_NAFOICDF_00186
+MN------------------------------ASPSGAHAVDHPRDDAAHAAQSQLHRGLSQRHIMFIALGTAIGTGLFY
+GSAGGIQTAGPGVILSFLIAGFAVYLVMRALGEMTLREPVSGSFAAYASRYLGPFAGYVTGWTFVFELAVVIVADTAAVT
+KYMAFWFPGVPAWAWVAATILVIGLVNLTHVGNFGEAEFWLTLIKIGAIVAMIFGGLILMFTGASFTDGTPAGLHNLVDH
+GGFLPHGFGGVLIALTIVTFSFGGIETLGVAAGEAKDPETALPKAINTVPVRILLFYVLTMVVIMSLVPWSAVDGKTSPF
+VQIFEGLGVPFAPHILNFVVLTAAISAINACIYASGRLLYAMAHDGQAPRAFTRTTANGVPWLTVAVMLGVMVLGAILIT
+VNP-DAFGLIAGVASFAVVLTWTMIFLSHRAMRARVKEAGAPPSVYPMPFGIVGTVLGLAFVATVVITMATI--------
+---PESRQA-----LLIGLAWVVALTAAWFVTGVRKTAALHDRTGQLPVVHRHH------
+>KD337_NAFOICDF_00187
+MQ------------------------------STPA-----------PEAPAQAQLQRGLNPRHITFIALGTAVGTGLFY
+GSAAGIQAAGPGVVLAFMLAGAAVYLVMRALGEMAVREPISGSFVAYASRYLGPFAGFLTGWTYVFELAVVIVADTTAVT
+VYMAFWYPDVPAWVWVAATMVVLGLINVTHVGSFGEAEFWFSLIKVLAIVGMIFGGVILMFSGASFQDGVTPGPHNLVEH
+GGFLPHGLMGVLTALTIVTFSFGGTETLGIAAGEAEDPASALPRAVNTVPVRILFFYIGSMLVIMSLVPWTTVDGETSPF
+VQIFETLGVPFAPHLLNFVVLTAAVSAINACIFTNARLLHHMAHDGHAPRVFTAVTRGGVPWVTVVAMLGVMAAGAVFMS
+VKE-DTFGIVAGVATFAVVFTWALILASHLGMRRALARHGQAPGAFPMPGGRVGAWLGLAFVAVVAGTMAFDQGGAVLGA
+LGGPDALQTALAQPFVIGVLWLAVLAAAWAVPAVRRSAHRHDRHGTPPPLTWDV------
+>KD337_NAFOICDF_02180
+MTPERRGPGTSPGGRYGVRVNEPPALPEPTGAAPPAPSPAGGATAAPSHGAADARLRRGLSMRHIQFIALGSAIGTGLFY
+GSATAIQLAGPAVILAYLVAGAAVFMVMRALGELAVRHPVPGSFGQYADRYLGPFAGFVTGWTFVFEMVVVAIADVTAFG
+VYMGFWFPDTPRWIWVTAVILFIAAVNTRHVKVFGELEFWLSIVKVSAILAMVIGGVALLVMGVSLDAATPAGVQNLVDH
+GGFAPHGAAGVLAALSVVVFAFGGVETIGITAGEAQDPGRAIPRAVNAVPARILLFYVMTMVVIMSLVPWDRITGEASPF
+VEIFSTLGVPAAPAILNLVVITAAISAINADTFSAGRMLFGMAQQGRAPAVFASVSRGGVPWMAAVVMGLALAVGAVLNA
+VIPEDVFVVVASIATFATVWVWLMILLAHIAMRREVARRGLPASAFPVPLWPAASWAAVAFVLLVVGLLGWF--------
+---SDTRVA-----MIVGLVWLVLLGAAY-----RLFLHGHGR--SRPDLEEGAA--SSP
+>SA211_MHAAABBN_02148
+MS------------------------------TSPSGSRVAE---TGAATADRGQLHRGLSQRHIMFIALGTAVGTGLFY
+GSAGGIQAAGPGVILSFLVAGAAVFLVMRALGEMTLREPVSGSFAAYASRYLGPFAGYVTGWTFVFELAVVIVADTAAIT
+TYMAFWFPGVPAWAWVAATILVVGLINFTHVGNFGEAEFWLTLVKVGAIVAMIFGGVILLFTGASTADGTQASLANLVDH
+GGFLPHGILGVLTALTIVTFSFGGIETLGVAAGEAKNPEKVLPKAINTVPIRILLFYVLTMAVIMALVPWNQVDGKASPF
+VQIFEGLGVPFAPHLLNFVVLTAAVSAINACIYASGRLLYAMAHDGQAPRAFTHTNRGGVPWLSVAVMLGVMVLGAVLIT
+VDP-NAFSLVAGVASFAVVLTWAMIFLSHRAMRRRVAEQGAEPSPFPMPLGGVGTYLGLAFVATVVITMATI--------
+---PDSRQA-----LIIGLVWVAVLTLAWFVTGTRTSAAAHDRTGTLPVVRTRQS--HED
+>TT9_LFPAFLNI_00142
+MS------------------------------TSPFGSRVAE---TGAATADRGQLHRGLSQRHIMFIALGTAVGTGLFY
+GSAGGIQAAGPGVILSFLVAGAAVFLVMRALGEMTLREPVSGSFAAYASRYLGPFAGYVTGWTFVFELAVVIVADTAAIT
+TYMAFWFPGVPAWAWVAATILVVGLINFTHVGNFGEAEFWLTLVKVGAIVAMIFGGVILLFTGASTADGTQASLANLVDH
+GGFLPHGILGVLTALTIVTFSFGGIETLGVAAGEAKNPEKVLPKAINTVPIRILLFYVLTMAVIMALVPWNQVDGKASPF
+VQIFEGLGVPFAPHLLNFVVLTAAVSAINACIYASGRLLYAMAHDGQAPRAFTHTNRGGVPWLSVAVMLGVMVLGAVLIT
+VDP-NAFSLVAGVASFAVVLTWAMIFLSHRAMRRRVAEQGAEPSPFPMPLGGVGTYLGLAFVATVVITMATI--------
+---PDSRQA-----LIIGLVWVAVLTLAWFVTGTRTSAAAHDRTGTLPVVRTRQS--HED

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000029.fa

@@ -0,0 +1,29 @@
+>AS2_ACLBLIBL_00292
+M-------------------NFALDGRNYEIDLSKEHADELREFLKPYMKK---------
+--GRAVAP-------PSPK-----VEAAQIRKWAAENGYEVSSRGRLHRDVVEAYRNARR
+K-
+>KBS0714_MOLHKGIG_00099
+M-------------------NFALDGRNYEIDLSKEHAAELREFLKPYMKK---------
+--GRAVAP-------PSPK-----VEAAQIRKWAAENGYEVSSRGRLHRDVVEAYRNAKR
+K-
+>KD337_NAFOICDF_00617
+MATITTIADDFDNSTPAETTYFSVNGKEYAIDLNEEHRRELEDVLEEVAERLSKYTAVAR
+PLGKSSAPARKSSKSPSSR-SGASYDAGAVRSWAEENGYKVADRGRISADVLEAY-NASK
+KG
+>KD337_NAFOICDF_00670
+MAIISTVADDFDGSTPAEAVRFSVAGRDYEIDLSKEHRAELDAIMAEFQDRLKKFTDVAR
+PAGRAASTGR----TPARRSSGSGVDASTVRLWAVENGFDVKDRGRIPVEVMDAYRNRGK
+KG
+>SA211_MHAAABBN_02112
+M-------------------NFALDGRNYEIDLSKEHAAELREFLKPYMKK---------
+--GRAVAP-------PSPK-----VEAAQIRKWAAENGYEVSSRGRLHRDVVEAYRNAKR
+K-
+>TT9_LFPAFLNI_00094
+M-------------------NFALDGRNYEIDLSKEHAAELREFLKPYMKK---------
+--GRAVAP-------PSPK-----VEAAQIRKWAAENGYEVSSRGRLHRDVVEAYRNAKR
+K-
+>TT9_LFPAFLNI_02014
+MAIISTVADDFDGSTPAEAVRFSVAGRDYEIDLSKEHRAELDAIMAEFQDRLKKFTDVAR
+PAGRAASTGR----TPARRSSGSGVDASTVRLWAVENGFDVKDRGRIPVEVMDAYRNRGK
+KG
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000031.fa

@@ -0,0 +1,98 @@
+>AS2_ACLBLIBL_00397
+M------SRTEDQDPG-----RRPEVAL----PALGFWGTLRFAWTQLTSMRTALMLLLLLAVAAVPGSLFPQRPAGPGI
+VQDYIDDNPVLGEWLDR--FQMFDVYSSVWFSAIYLLLFISLIGCVAPRAVKHAQALRSAPPRTPRRLSRLPEYGRVVLE
+PGGPAPVE-------AVEQAARYLKRRGYRIEV----RQEDAGGASVGAARGYLREVGNIVFHLSLIGVLVFMATGSLLS
+YRGQKILVEGEGFANTLVAYDAFTPGSAFSEEMLTPFSMTLKRVEYVYDRQSPTH---YGQPLD----------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------
+>AS2_ACLBLIBL_01068
+MGDAPVSSKAA--------RTRSEPVTL----PRLGLAGTLRWIWTQLTSMSTALMLLLLLAVAAVPGSLVPQRRAGPEI
+VDQWIEDNPVWGPVLDA--LQFFDVYNSVWFSAIYLLLFVSLVGCVWPRAIQHAKALRQPPARTPRNLTRLPASGVVVLE
+EGGPSPEE-------AVARAQAWLRKRRYRVEH----RPE-ASGASVGAERGYLREIGNILFHVSLIGVLVFMAYGGMTK
+YYGQKIIVEGEGFANNLVSYDSFTPGTYFSADDLQPFSLTLDSFDVVFDRESEAL---YGQPLDYTAVMQVQEGGGGEPR
+EEILKVNHPLSMDGVRVYLVGNGYAPVLTVRDGEGDIAFQGPVVTRVQDV-NFNSLVTLKVPD------ARPDQLGFVGQ
+FMPAAVEDESGVAVSVDPELYNPQLILDSYYGDLGLDGGVPQNVYVLDTETLTELNSRKNENGGIVLSQGQTYELPEGKG
+SISFDGVRRYVGLDIHYDPGKWGVGVFAGTALLGLAISLFVRRRRVWVRARTDEAGRTRVEYALLARGEEFGLHEEHVAL
+RAAMEKWWPVAAATAPE-------------TTPETPCRPRRRPIRRLTVFNPTAPVNEQLALYSDLFMLIAAFVYAAAFV
+LFTIDMATSSATIRRLEEDLAAQRGPARLAPARETVGAGFGGSSLGGSSSVGSTGAGSSAGGPGVLPGEARAAGLGDEPG
+LVDEDMDYTGGGRRPIANVAVAVLAVGWALHAFAVIARGLAASRVPWGNLYEFMTTGALVITTVYLLFLFRKDLRFVGTF
+VTGLVVAMMCAATMGFPTPVGHLQPPLQSPWLVIHVSIAVLATALFTLTAAMSMLQLIQDRAEKRAAATGERPWAFLRLV
+PSAQALENWSYRINAVGFVMWTFTLIAGAIWAEASWGRYWNWDTKEVWTFVIWVVYAAYLHARATRGWTGARAAWLSIVG
+FLCVVFNYTIVNTYFPGLHSYAGLPG
+>AS2_ACLBLIBL_02641
+M------SRPSDYDDG-----TGAGGTLRAESPELGFAGWLRWFWRQLTSMRVALILLLLLAVAAIPGSLVPQRGADPNG
+VVQYQKDHPDLFPILDAFPIQAFDVYGSVWFSAIYLLLFISLIGCVLPRIAHHWKAWRGRPPKTPARLQRMAGFSEIRLS
+NPDATPAEREAFAARAVDEAAAILKKLRYRVEVQRASRRG-VDEVSVSAERGYLRETGNLLFHVSLLGVLVSVGLGGVFT
+FNGQKVLIEGETMVNQLIDYDTATSGRSFDSSSLEPFSLRLDTLDVTYNTPDDGNVQAIGLVKDYTANMTLISPEGDE-S
+EHVIRVNHPLRVHGSPIYLIANGYAPKITIRNAEGTVVYSEAMPFIPQDNLNMTSLGVVKVPDGIVDESGEPVQLGLRGF
+FYPTKADLDTGAYTSNYPDLENPVLTLDVFVGDLGINDGIPKSVYALDTSDMEQVTGRAVDLDSIELRPGEQTELPNGFG
+TIEFESVPRYASFDVMQNPAQEWILVFAVLALGGLMWSLFVPRRRMWVKALPSEDG-VVLQYAALARGDDPALERAVEEL
+RDRHRELL------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------
+>KBS0714_MOLHKGIG_01806
+M-----SSKAA--------RTRSEPVTL----PRLGLAGTLRWIWTQLTSMSTALMLLLLLAVAAVPGSLVPQRRAGPEI
+VDQWIEDNPVWGPVLDA--LQFFDVYNSVWFSAIYLLLFVSLVGCVWPRAIQHAKALRQPPARTPRNLTRLPASGVVVLE
+EGGPSPEE-------AVARAQAWLRKRRYRVER----RLE-AGGASVGAERGYLREIGNILFHVSLIGVLVFMAYGGMTK
+YGGQKIIVEGEGFANNLVAYDSFTPGTYFSADDLQPFSLTLDSFDAVFDRESETH---YGQPLDYTAVMDVREGSGGELQ
+RQILKVNQPLDIDGVRVYLVGNGYAPVVTIRDGAGDVAFQGPVVTRVFDQ-NYGSQATIKVPD------ARPDQLGFVGF
+FLPSAVEDEEGAAFSADPELLNPELQLNSYYGDLGLDTGRPQNVYVLDTASLTELNSRTNENGGIVLSPGQTYELPEGKG
+SISFDGVRRYVGLDIHYDPGKWGVGVFAGTALLGLAISLFVRRRRVWVRARTDDDGRTRVEYALLARGEEFGLHEEHVAL
+RAAMEKWWPIVAATETADDAAAGAAPQSTPTAPETPAGPA----------------------------------------
+--------------------------------------------------------------------DARS---GD---
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------
+>KD337_NAFOICDF_01003
+MGDAPVSSTSAPKDPAPRNRTRDD-VTL----PALGVGGTLRWAWTQLTSMRTALLLLLLLAVAAVPGSLVPQRRAGPEA
+VDQWIEDNPFWGPILDA--LQFFDVYTSVWFSAIYLLLFISLVGCVLPRALKHAKALRQPPARTPRNLGRLPESGVVVLE
+AGGPAPEE-------AVRQAQRWLKRKRYRVEL----RPE-AGGASVGAERGYLREIGNILFHFSLIGVLAFMAYGGMTK
+YTGQKIIVEGEGFANNLVAYDSFTPGMYFDAASLQPFQLTLKSFDATFERQSQTH---WGAPLDYTAVMEVRHGTGGDPE
+EQVLKVNHPLEIDGAKVYLVGNGYAPVVTVRDGNGDIAFQGPVVTRVTDQ-NFNSLAVIKAPD------ARPDQLGFVGQ
+FMPAAADVGQGVEVSVDPEPLNPKLILNSYSGDLGLDAGVPQNVYVLDTSTLTELNSRRSENGGITLSVGQTHVLPDGKG
+SISLDGVRRYVGLDIHYDAGKWGVGVFSVLALIGLAVSLFTRRRRVWVRARTGDDGRTRVEYALLARGEEFGLREEHVAL
+REAFEKMWPVSAPEADTGE-----------TTPATPA-PAAAP-------------------------------------
+--------------------------------------------------------------------TPRS---GD---
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------
+>SA211_MHAAABBN_01503
+M-----SSKAA--------RTRSEPVTL----PRLGLAGTLRWIWTQLTSMSTALMLLLLLAVAAVPGSLVPQRRAGPEI
+VDQWIEDNPVWGPVLDA--LQFFDVYNSVWFSAIYLLLFVSLVGCVWPRAIQHAKALRQPPARTPRNLTRLPASGVVVLE
+DGGPGPEE-------AVARAQAWLRKRRYRVEH----RPE-AGGASVGAERGYLREIGNILFHVSLIGVLVFMAYGGMTK
+YGGQKIIVEGEGFANNLVAYDSFTPGTYFSADDLQPFSLTLDSFDAVFERQSETT---YGQPLDYTAVMDVREGTGGELQ
+RQILKVNQPLDIDGVRVYLVGNGYAPVVTIRDGAGDVAFQGPVVTRVFDQ-NYGSQATIKVPD------ARPDQLGFVGF
+FLPSAVEDEEGAAFSADPELLNPELQLNSYYGDLGLDTGRPQNVYVLDTASLTELNSRTNENGGIVLSPGQTYELPEGKG
+SISFDGVRRYVGLDIHYDPGKWGVGVFAGTALLGLVISLFVRRRRVWVRARTDEAGRTRVEYALLARGEEFGLHEEHVAL
+RSAMERWWPVAAPESEEEAVASAAAVGHTGTTPETLAGPR----------------------------------------
+--------------------------------------------------------------------TPRS---GD---
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------
+>TT9_LFPAFLNI_01727
+M-----SSKAA--------RTRSEPVTL----PRLGLAGTLRWIWTQLTSMSTALMLLLLLAVAAVPGSLVPQRRAGPEI
+VDQWIEDNPVWGPVLDA--LQFFDVYNSVWFSAIYLLLFVSLVGCVWPRAIQHAKALRQPPARTPRNLTRLPASGVVVLE
+EGGPSPEE-------AVARAQAWLRKRRYRVEH----RPE-AGGASVGAERGYLREIGNILFHVSLIGVLVFMAYGGMTK
+YGGQKIIVEGEGFANNLVAYDSFTPGTYFSADDLQPFSLTLDSFDAVFDRESETH---YGQPLDYTAVMDVREGSGGELQ
+RQILKVNQPLDIDGVRVYLVGNGYAPVVTIRDGAGDVAFQGPVVTRVFDQ-NYGSQATIKVPD------ARPDQLGFVGF
+FLPSAVEDEEGAAFSADPELLNPELQLNSYYGDLGLDTGRPQNVYVLDTASLTELNSRTNENGGIVLSPGQTYELPEGKG
+SISFDGVRRYVGLDIHYDPGKWGVGVFAGTALLGLAISLFVRRRRVWVRARTDDDGRTRVEYALLARGEEFGLHEEHVAL
+RAAMEKWWPIVAATETADDAAAGAAPQSTSTTPETPAGPA----------------------------------------
+--------------------------------------------------------------------DARS---GD---
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000032.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00398
+MPIPQPHREGHHRPPGLPPRPGRRQVLAGLAG-VASLPLLAACS-AEDPLAAQAGKADGK
+NYIAGDGSVLEIGPAERGEPVQFSSAMFSGEPIIAQDLAGDPAVLNFWYAACAPCRVEAP
+DLQALHEQFAPEGVRFLGINVRDTIATAQAFERKFGITYPSVEDRGG--QVLLAMTDYVP
+PQAVPTTIVLDHQGRVSARILGIAE-RSTLRTLITTVLDEQA------------------
+--
+>AS2_ACLBLIBL_01066
+MH--------------TPPRPSRRTLLTGLAL-ASLAPALAACSGGDDSLARQAGNADGK
+NYIAGDGSVLEIAPAERGAPVEFAAELFDGTPVTGASLRGTPALLNFWYAACAPCRVEAP
+HLVSLHEQFAPQGVRFLGVNVRDTVTTAQAFERTFEIPYPSIEDTRG--DVLLNMADYVP
+PQAVPSTLVLDVEGRVAARVLGAVE-ESTLRALLTTVVDEAAA-----------------
+--
+>AS2_ACLBLIBL_02643
+MN--------------------RRRTGAALALPIAALFALAGCSGGDGNLAAEWNEASGK
+GYVSGDGSSLSIAPDQRTEPVEFSGETEDGDIYGSDDTVGSVTVVNFWYAGCAPCRAEAP
+DLVEAYDEFSPQGVKFVGVNTRDQVAQARQFSVRFDIEYPSIMDNAGGRAVQRAFAGQVP
+LNAVPTTLVLDAEGRVAHRVLGQLAGASQLRTLIGETLAEAGGGAAADPASDPAPADEAT
+EQ
+>KBS0714_MOLHKGIG_01808
+MQ--------------T-PRPSRRTVLTGLSL-LGLAPVLAACS-GDDSLTRQAGNADGK
+NYIAGDGSVLEIAPAERGAPVEFAAELFDGTPVTGASLRGTPALLNFWYAACAPCRVEAP
+HLVSLHEQFAPQGVRFLGVNVRDTVTTAQAFERTFEIPYPSIEDARG--EVLLNMTDYVP
+PQAVPSTLVLDVEGRVAARVLGAVE-ESTLRALLTTVVDEAAA-----------------
+--
+>KD337_NAFOICDF_01001
+MP--------------FPPRPSRRAALAGLSA-AALAPLLAACSGTDDSLAQQAGNAGGK
+NYIAGDGSVVEYAADQRGAPVEFSAAGFDGETVSGETLRGEPALLNFWYAACAPCRVEAP
+HLVKLHGEFEPKGVRFLGVNVRDTVTTAQAFERTFGIPYSSVDDTSG--SVLLAMSDYVP
+PQAVPSTLVLDRQGRVAARVLGAVE-EGTLRALLDTVVAEA-------------------
+--
+>SA211_MHAAABBN_01505
+MQ--------------T-PRPSRRTVLTGLSL-LGLAPVLAACS-GDDSLTRQAGNADGK
+NYIAGDGSVLEIAPAERGAPVEFAAELFDGTPVTGASLRGTPALLNFWYAACAPCRVEAP
+HLVSLHEQFAPQGVRFLGVNVRDTVTTAQAFERTFEIPYPSIEDARG--EVLLNMTDYVP
+PQAVPSTLVLDVEGRVAARVLGAVE-ESTLRALLTTVVDEAAA-----------------
+--
+>TT9_LFPAFLNI_01729
+MH--------------TPPRPSRRTLLTGLAL-ASLAPALAACSGGDDSLARQAGNADGK
+NYIAGDGSVLEIAPAERGAPVEFAAELFDGTPVTGASLRGTPALLNFWYAACAPCRVEAP
+HLVSLHEQFAPQGVRFLGVNVRDTVTTAQAFERTFEIPYPSIEDARG--DVLLNMTDYVP
+PQAVPSTLVLDVEGRVAARVLGAVE-ESTLRALLTTVVDEAAA-----------------
+--
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000035.fa

@@ -0,0 +1,50 @@
+>AS2_ACLBLIBL_00413
+MAPSSYYAAKTRAP---SARAVRDEELIPQLVELWETNYRVYGIRKLWKAAGRAGIMIGR
+DRAARLMRAAGIEGARRSKRVKTTRPDPASARYPDLVKREFTAPAPNRLWATDLTFVPTW
+AGVAYVCFIVDAFSRMIVGWRCASHMRTEMVLDAIAMARWSRGARHEDLRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNSLAETVNGYYKAELVRGPARPGPWRTVEDLELAT
+LGWVSWHTTQRLHGYLGDVPPAEFEDTFYAVEAGREQLVGIQ------------------
+---------------
+>KBS0714_MOLHKGIG_01401
+MAVSGSFPGHLWAAFHGRLHSVRDEELIPQLVELWETNYRVYGVRKLWKTARRAGIDIGR
+DQTGRLMRAAGIKGATRSKRVKTTRPDPTAARHPDLVKREFTAPAPNRLWVTDLAFVTTW
+AGVAYVCFIVDAFSRMIVGWRCASHMRTEMVLDAIEMARWSRGARHEDLRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYYKAELVRGPARPGPWRTVEDLELAT
+LGWVSWHNTQRLHGYLGDVPPAEFEDTFYAVEAGREQLSESNSASLHQTQGASGPTLWSP
+TRSILDRAARPLRKF
+>KD337_NAFOICDF_00326
+MAPSSYYAAKTRTP---SARAARDEELIPQLVELWETNYRVYGIRKLWKAAGRAGIMIGR
+DQTARLMRAAGIEGARRSKRVKTTRPDPASARHPDLVKREFTAPAPNRLWVTDLTFVPTW
+AGVAYVCFIIDAFSRMIVGWRCASHMRTEMVLDAIEMARWSRGARHEDLRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYDKAELIRGPARPGPWRTTDDVELAT
+LGWVHWHNNQRLHGYLDDLPLTEFEERFYATQQGQYALVEIK------------------
+---------------
+>KD337_NAFOICDF_00649
+MAPSSYYAAKTRAP---SARAVRDEELIPQLVELWETNYRVYGIRKLWKAAGRAGIMIGR
+DQTARLMRAAGIEGARRSKRVKTTRPDPASARHPDLVKREFTAPAPNRLWVTDLTFVPTW
+AGVAYVCFIVDAFSRMIVGWRCASHMRTEMVLDAIEMARWSRGARHEDLRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYYKAELVRGPARPGPWRTVEDLELAT
+LGWVSWHNTQRLHGYLGDVPPAEFEDTFYAVEAGREQLVGIK------------------
+---------------
+>KD337_NAFOICDF_02217
+MAPSSYYAAKTRAP---SARAVRDEELIPQLVELWETNYRVYGIRKLWKAAGRAGIMIGR
+DQTARLMRAAGIEGARRSKRVKTTRPDPASARHPDLVKREFTAPAPNRLWVTDLTFVPTW
+AGVAYVCFIVDAFSRMIVGWRCASHMRTEMVLDAIEMARWSRGARHEDLRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYYKAELVRGPARPGPWRTVEDLELAT
+LGWVSWHNTQRLHGYLGDVPPAEFEDTFYAVEAGREQLVGIK------------------
+---------------
+>SA211_MHAAABBN_01131
+MAPSSYYAAKTRAP---SARAVRDEELIPQLVELWETNYRVYGIRKLWKAAGRAGIMIGR
+DQAARLMRAAGIEGARRSKRVKTTRPDPASARHPDLVKREFTAPAPNRLWVTDLTFVPTW
+AGVAYVCFIVDAFSRMIVGWRCASHMRTEMVLDAIEMARWSRGARHEDPRCHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYYKAEHVRGPARPGPWRTVEDLELAT
+LGWVSWHNTQRLHGYLGDVPPAEFEDTFYAVEAGREQLVGIK------------------
+---------------
+>TT9_LFPAFLNI_01351
+MG----------------------------------------------------------
+---------------------------------------SFSWP----------------
+-------------------------------------------------LTHSDAGSQFT
+SIRYGERLAEIGATPSIGTVGDSYDNALAETVNGYYKAEHVRGPARPGPWRTVEDLELAT
+LGWVSWHNTQRLHGYLGDVPPAEFEDTFYAVEAGREQLVGIK------------------
+---------------
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000036.fa

@@ -0,0 +1,56 @@
+>AS2_ACLBLIBL_00488
+M-TLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMVPNIPAFPVVFFAALQLGAV
+VVPMNPLFKRRQIEYYPEDSGASMLWSVPSEDAVEGARERGVPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYT
+SGTTGRPKGAQLTHRNMGTNADTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVRG
+CAVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFHCEILEGYGLSETSPVACFNHPGEEHQP
+GSIGRAVRGCELQLVTPDGAVVPEGDEETLGEVWIRGENVMKGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYSIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVSV
+RDGLPKTATGKILKRELTPAE
+>AS2_ACLBLIBL_00493
+MPDVVVPILLERTAAAEPDRTALILGEERLTYAELQDQVHRIAGLLRSQGLGPGDRMAIMLPNVLAFPVLFFGALQVGAV
+VVPMNPLFKTREIQYYLEDSGAVMLWGVPSEEAEAATQAVGVPFHALGADGLAPHLTASPGPVTEAAERDPQDDAVILYT
+SGTTGRPKGAQLTHRNLTSNANTVVETLIHLKAGETILGCLPLFHVFGLTCSMLTCVSVGATLSLIPRFDPTQAIETIRR
+DAVDVFIGVPTMYGAILTVGAEDPSALASLRVAVSGGSSMPVEVLRRFESTFGCQILEGYGLSETSPAACFNHPDTDRQP
+GSIGTPIRGVELRLVTPGGEEVPEGDAETIGEVCIRGENIMKGYWGRPDATAEAIDDDGWFHSGDLGRRDAAGNYYIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGEDVAAYVVLAPGAEATEAELIAHVKDRVAPYKYPRTVHL
+MDGLPKTATGKILKRELGTAG
+>KBS0714_MOLHKGIG_02253
+M-TLTLSARLERTAAEHPHSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMVPNIPAFPVVFFAALQLGAV
+VVPMNPLFKRREIECYLEDSGASMLWSVPSEEAVEGARERGVPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYT
+SGTTGRPKGAQLTHRNMGTNADTVAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTIGASLALIPRFDPAVAAQTVRE
+HAVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFDCEILEGYGLSETSPVACFNHPGEEHHP
+GSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVMKGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTV
+RDGLPKTATGKILKRELTPAE
+>KBS0714_MOLHKGIG_02275
+M------------------------------------------GWRFLRG------------------------------
+--PLN---------------------------------------------------------------------------
+--------------------------------------------------------------------LDP---------
+--------------------------------------------------------------------------------
+---------------------------------------------------------------GD------------VEN
+LDEVRLRGGMNVYPQEIEEVLYEHPALAEAAVVGVPHPELGEEVAAYVTLAPGATATEEELVAHVKSQVAPYKYPRSVVA
+MDGLPKTATGKILKRELKAAR
+>KD337_NAFOICDF_00434
+M-TLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMVPNIPAFPVVFFAALQLGAV
+VVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGARERGVPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYT
+SGTTGRPKGAQLTHRNMGTNADTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVRE
+CAVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSALPVELLRRFEATFDCEILEGYGLSETSPVACFNHPGEEHQP
+GSIGRAVRGCEMQLVTPDGAVVPEDDEETLGEVWIRGENVMKGYWGKPEATAQAITEDGWFRSGDIARRDAAGNYYIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVRV
+RDGLPKTATGKILKRELTPAE
+>SA211_MHAAABBN_01952
+M-TLTLPARLERTAAEHPNSTALILGENRMTYAELHDQSQRLAGLMRQEGIGPGDRVALMVPNIPAFPVVFFAALQLGAV
+VVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGARERGVPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYT
+SGTTGRPKGAQLTHRNMGTNADTVAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTMGASLALIPRFDPAVAAQTVRE
+HAVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFDCEILEGYGLSETSPVACFNHPGEEHHP
+GSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVMKGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTV
+RDGLPKTATGKILKRELTPAE
+>TT9_LFPAFLNI_02184
+M-TLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMVPNIPAFPVVFFAALQLGAV
+VVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGAREHGVPLRTLGEDGLAPHLAASPGPVTETVERDLEDDAVILYT
+SGTTGRPKGAQLTHRNMGTNADTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVRE
+CAVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSALPVELLRRFEATFDCEILEGYGLSETSPVACFNHPGEEHQP
+GSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVMKGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDR
+TKDMILRGGLNVYPREIEEVLYEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTV
+RDGLPKTATGKILKRELTPAE

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000039.fa

@@ -0,0 +1,50 @@
+>AS2_ACLBLIBL_00684
+MNM---------------------------------------------------------
+-------------------LQAIRRYYAGYAQFSGLASRADFWLAALYVWLLQTAV----
+--------------------HFVSTALDVFILGSPDLSLRDAAVLLVGVTHALPSLALLA
+RRLHDAGFSRAWLLLGLVPFVGPLTLLVFALQPSAPRLG---------------------
+--HPAD---------ASDPVPAGVTASATAARR---------------------------
+-------------
+>KBS0714_MOLHKGIG_02094
+MNM---------------------------------------------------------
+-------------------LQAIRRYYAGYVQFSGRASRADFWLAALYVWLLQAAV----
+--------------------RFVSTALDVFVLGAPDPSLRDAAILLVGITHALPSLALLA
+RRLHDAGFSRAWLFLGLVPFVGPLTLLVFALQPSAPRLG---------------------
+--HPAD---------ASDPVPAG----ATAARR---------------------------
+-------------
+>KD337_NAFOICDF_00599
+M-----------------------------------------------------------
+------------------------------------------------------------
+-----------------------STALDVFILGSPDLSLRDVAVLLVGITHALPSLALLA
+RRLHDAGFSHAWLFVGLVPLVGPLTLLVFALQPTAPRFG---------------------
+--HPTD---------ASDPVPAGPRPRGADPRRHVRP-----------------------
+-----------DQ
+>KD337_NAFOICDF_00600
+MTM---------------------------------------------------------
+-------------------RQAIRRYYAGYAQFSGRASRADFWLAALCV-----------
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+-------------
+>KD337_NAFOICDF_02101
+MTQPHDPSQNPYGQQPAAGQPPYGQAPSGQSQYGQADYGQTQYGQTQYGAPSPGYGYGYQ
+PGVPFPEDPRVAPAPGVGPVEAVKRFYTRYALFYGRASRSEFWWVQLYLVLVSLVLTALM
+------------FAVLVPAGAFSNTTTELSEAGAVGVLAITGLFLVFVLAHLVPSIALQV
+RRLHDAGFSGFWFFIGLVPYVGELVLLVLSVLPSKPEGA---------------------
+---------------RFDR-----------------------------------------
+-------------
+>SA211_MHAAABBN_01802
+MTM---------------------------------------------------------
+-------------------LQAIRRYYAGYAQFSGRASRADFWLAALYVWLLQAVV----
+--------------------HFVSTVLDVFLLGSPDLSLRDAAVLLVGITHALPSLALLA
+RRLHDAGFSRAWLFLGLVPFVGPLTLLVFALQPSAPRLG---------------------
+--HPAD---------ASDPVPAG----ATAARR---------------------------
+-------------
+>TT9_LFPAFLNI_02031
+MTF---------------------------------------------------------
+-------------------LRAVGRFYGRYAQFGGRGGRAEFWWVVLYLSLASLGITLLF
+GALGADTTTAAPSAVVFPGFAVSGLSVPAVDSMTEAYQAFSG---VWGLLHLVPAWALTA
+RRLHDAGLSRAWLLLALLPVLGAIALLVMVLQPSDPRVAAEHVVEVSVGHAPERESIGGL
+RDHPTILPTALNRLLVFDMCVKPPPPRSPRCRRRGLPRSPHEDAEGVAGRVREHVQGLVL
+VVGAVQDEAPAQA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000040.fa

@@ -0,0 +1,64 @@
+>AS2_ACLBLIBL_00694
+-MSTDPRRQTPAPRVPDTGTRPPPEGRARWLVASNALDAGGRSATDVALDVLAVLLLGVG
+ADGMGVLMTLSGLGFLLLGVPIGIVVDR-HLSPRLLAA---TGLAKAAVLGSLVVAWALD
+ALTFGHLAAVMALLGVLTVLAETTQTALVPRVVPATAVARLTARLESADAALVLIVPAAA
+GVLVGSLGAGPVLGIATSFLFAAAIVALRVRLRPSAAVDIPDDDGDPGVADVLSRWARFG
+KDAAEGWTVLRRAPVLWLLTMGSVAANVGMALFAPVEAVWILTDLRLGPEFLGVQITAGA
+VGALAASSLAGRAIDRLGERRCILLGSVGCAVAVGLHLLAYADRAHAGPWLLAGAALW-G
+FMVLLGNITQAAVTARACPEGTLGRVTAMRRTLTRGSVPLATLAGGALGATLGVGWALA-
+-GWQVLAVVSLAAVVPATRHL------GPRTAER----
+>AS2_ACLBLIBL_01308
+MVSSPLTDDTTAP---ENAAPAKRLGRARWLVASNALDAGGRSATDVAIDVLAVLALGVG
+AAQMGVLMTLSGLGFLLLGVPIGILVDR-HLSPRLLVA---TDLAKAALLGTLVLAWALD
+ALTFAHLAAVMALLGVLTVLAETTQATLVPRVVAPDTVSRLAARLESADAALGLIVPAAA
+GLLVAALGAGPVLGIAAAFLAAAALVALKVRMNPAPVTEDTRDEETPAAAVVLTRWSRFW
+SEAAHGWTTLRRTPVLWLLTLNSMAGNIGMALFAPIEAVWVLTDLQLGPEFVGFQLTAGA
+LGALTVSALAPRAIDTLGEKGCILAGSAGCAAAVALHLAAFFDRAHAGPLLLAGAALW-G
+FMVVLGNITSGAIFARSCPEGTLGRVTAMRRTLTRGSVPLATLAGGALGAAFGPGWVLA-
+-GWQAMALLSLAFAFAATR-----------LARRPQ--
+>KBS0714_MOLHKGIG_02089
+-MSTDPRRQTPAPRGSDTGTPPLPEGRARWLVASNALDAGGRSATDVALDVLAVLLLGVG
+ADGMGVLMTLSGLGFLLLGVPLGIVVDR-HLSPRLLAA---TGLAKAAVLGSLVAAWALD
+ALTFGHLAAVMTLLGVLTVLAETTQTALVPRVVPATAVARLTARLESADAALVLIVPAAA
+GVLVGSLGAGPVLGIATAFLFAAAIVALRVRLRPSAAADVPDDDGDPGVADVLSRWARFG
+KDAAEGWTVLRRTPVLWLLTMGSVAANVGMALFAPVEAVWILTDLRLGPEFLGIQITAGA
+VGALTASSLAGRAIDRLGERRCILLGSVGCAVAVGLHLLAYADRAHAGPWLLAGAALW-G
+FMVLLGNITQAAVTARACPEGTLGRVTAMRRTLTRGSVPLATLAGGALGATLGVGWALA-
+-GWQVLAVVSLAAVVPAARWV---------DAGRDDVD
+>KD337_NAFOICDF_00662
+----------------MTRVSAWRSRDFRRLWGASTASALGGEIGELAMPVLALVWLGAS
+AEELSWVRVATFLPYLVLPLWLGVLVDRWRRRPLMITAETVSGITLLGIAGAALAGW---
+-LTVPALVAAAAVLGAMSVLHMLADFSFTPQVVSRAALPDANAKMTATYSAIGIGGSGVG
+GALVQWLTAPFAVAINGAGRLLSVVLLRRIQTHEPPA-EAPDTSAR--------------
+QQAREGFLALLRHRVVRALAAEATIWNLGNEVFMLALTVLIVDARDDGPLVLGLIFMAGG
+LGAFLGAGISARLTERFGYGRSLITAMLVGNTAPLIGVLFSSDTSVTSLVVLAAAFFASG
+FGTGIANSQAVTVRQVTVPEELRGRVNASYRMLSWGALAIGALLGGWLISAVG-GWLAAA
+LGTAAMAASTLPVALSPVRQMRDLDDGAPPAAE-----
+>KD337_NAFOICDF_02237
+-MSSPLTDDTTAP---ENAARAKRLGHARWLVASNALDAGGRSATDVAIDVLAVLALGVG
+AAQMGVLMTLSGLGFLLLGVPIGILVDR-HLSPRLLVA---TDLAKAALLGTLVLAWALD
+ALTFAHLAAVMALLGVLTVLAETTQATLVPRVVAPDTVSRLAARLESADAALGLIVPAAA
+GLLVAALGAGPVLGIAAAFLATAALVALKVRINPAPVTEDTQDEETPAAAVVLTRWSRFW
+SEAAHGWTTLRRTPVLWLLTLNSMAGNIGMALFAPIEAVWVLTDLQLGPEFVGFQLTAGA
+LGALTVSTLAPRAIDTLGEKGCILAGAAGCAAAVALHLAAFFDRAHAGPLLLAGAALW-G
+FMVVLGNITSGAIFARSCPEGTLGRVTAMRRTLTRGSVPLATLAGGALGAAFGPGWVLA-
+-GWQAMALLSLAFAIAATR-----------LARRPH--
+>SA211_MHAAABBN_01794
+-MSTDPRRQTPAPRGSDTGTPPLPEGRARWLVASNALDAGGRSATDVALDVLAVLLLGVG
+ADGMGVLMTLSGLGFLLLGVPLGIVVDR-HLSPRLLAA---TGLAKAAVLGSLVAAWALD
+ALTFGHLAAVMTLLGVLTVLAETTQTALVPRVVPATAVARLTARLESADAALVLIVPAAA
+GVLVGSLGAGPVLGIATAFLFAAAIVALRVRLRPSAAADVPDDDGDPGVADVLSRWARFG
+KDAAEGWTVLRRTPVLWLLTMGSVAANVGMALFAPVEAVWILTDLRLGPEFLGIQITAGA
+VGALTASSLAGRAIDRLGERRCILLGSVGCAVAVGLHLLAYADRAHAGPWLLAGAALW-G
+FMVLLGNITQAAVTARACPEGTLGRVTAMRRTLTRGSVPLATLAGGALGATLGVGWALA-
+-GWQVLAVVSLAAVVPAARHL------GPRTAER----
+>TT9_LFPAFLNI_02028
+-MSTDPRRQTPAPRTPDTGTPPPPEGRARWLVASNALDAGGRSASDVALDVLAVLLLGVG
+ADGMGVLMALSGLGFLLLGVPIGIVVDR-HLSPRLLAA---TGLAKAAVLGSLVVAWALD
+ALTFGHLAAVMALLGVLTVLAETTQTALVPRVVPATAVARLTARLESADAALVLIVPAAA
+GVLVGSLGAGPVLGTATAFLFAAAIVALRVRLRPSAAADVPDDDGDPGVADVLSRWARFG
+KDAAEGWTVLRRTPVLWLLTMGSVAANVGMALFAPVEAVWILTDLRLGPEFLGIQITAGA
+VGALTASSLAGRAIDRLGERRCILLGSVGCAVAVGLHLLAYADRAHAGPWLLAGAALW-G
+FMVLLGNITQAAVTARACPEGTLGRVTAMRRTLTRGSVPLATLAGGALGATLGVGWALA-
+-GWQVLAVVSLAAVVPAARWV---------DAGRDDVD
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000043.fa

@@ -0,0 +1,50 @@
+>AS2_ACLBLIBL_00725
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGTKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>KBS0714_MOLHKGIG_00162
+MSTPATRGRADGGAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>KBS0714_MOLHKGIG_01072
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>SA211_MHAAABBN_00335
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>SA211_MHAAABBN_00348
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>SA211_MHAAABBN_00791
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLHDRYGIAHATLQ
+VEGAGSDGCHDLSW
+>TT9_LFPAFLNI_01021
+M-----------GAGHSHAPATGHAGGRYRRRLAGAFALTAGFFLIELVAGLVSGSLALL
+SDAGHMAADVVVLGAALLATRIASRPDSTGRRTYGSYRAEVFASALAVLAMLAVGVYVVV
+EAISRLGDAPEVASGAMLAVGFAGLVINIISMLLLRSGAKDSLNVKGAYYEVIADAAGSV
+GVMVAGVLIILTGQPIWDVVVAALIAVFVIIRAVVLGRQVIAVLGQHAPEGVDPEDVAGD
+LDAVEGVEEVHDLHLWTLTSGMNVATAHLVADQGADHGAVLAGARRVLRDRYGIAHATLQ
+VEGAGSDGCHDLSW
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000044.fa

@@ -0,0 +1,29 @@
+>AS2_ACLBLIBL_00726
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLADPRRARVLYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>KBS0714_MOLHKGIG_00163
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARALYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>KBS0714_MOLHKGIG_01071
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARALYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>SA211_MHAAABBN_00334
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARALYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>SA211_MHAAABBN_00349
+MSVTLLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARALYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>SA211_MHAAABBN_00790
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARVLYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+>TT9_LFPAFLNI_01020
+MSVTPLDSCQVTAVHPEKVALTRERIPDEREAGRLAGLFKLLGDPRRARVLYALLEAGEL
+CVCDLAASVDVAEASVSQVLRVLRTAGVVENRREGRMVYYRLADGHVRMLLDVSREHARH
+EGQG
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000047.fa

@@ -0,0 +1,70 @@
+>AS2_ACLBLIBL_00855
+MT-------LLEVHDVDKTFHSG-GEAVPVLRGASLLVPAGEMHAVTGPSGSGKSTLLRILACLDSPDSGRVLLGGEP--
+----LPEPWSRGGDRYRNQRCGIVLQDFALMEHATALENVMLPLRYGPDRVPRGEQRRRAGEALERVGLGTRTGHRARTL
+SGGEKQRVAVARALINEPPLVLADEPTGALDQERTRDVVD-LLRGAVGPERAVVVVTHDPRVAAACDRRWHLVDGGLAPQ
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+------------------------------D
+>AS2_ACLBLIBL_01010
+MSDGS-APPLLELAGVLKSFK---GADRPALDGVDLTVRDGDFVAIVGPSGSGKSTLLNVLGLLDRPDGGSYRVSGTD--
+----TMSMGERERDRLRSRWFGFVFQSSHALGDEPVAVNAALGLRVQRTPPEQRDAR--AGEALALLGLSHRLDTRAKLL
+SGGERQRLAIARAIATRPRVILADEPTGNLDSVNSRIVID-HLRALHAQGATVLLITHDPEIARQADRQVRIEDGRITEL
+AGHRTAASASADMAGTGHGWSAPGAARRHRSPRSSAMLDDLVEAVSSLSTRFLRTVLLMAAFAVGIGGLVASVGLTQTAT
+DQVGALLTAAALDEVVVTVPQAEGLLDPGDGRLASWADGLAALPHVTAAGHVAQVAPADVVITRHDPSDPEPAVAISLVA
+ASSSYAGLAGLTLPSETSRTLLDSPDARLAWATPAAARALELPVTDTGMLSPGYRVWIQGHAVDVAGIVTLSERTPELDA
+SLVVTPAVMTGVAQAHPQLVVRTEAGFPYPVSQAAPLVIAPENPGSVTVRTVADLRNLRAGVSDDLGAFVGVLSGVLLVL
+AVISASTAMYLSVQARTAEIALRRAIGSPRGLIARLFLLEGALIGLAGGAVGAAVGSGVILAVSQARGWAAVLPPGAVPL
+ALGLGLVAGVVSALYPGWVASRQRPADALRG
+>KD337_NAFOICDF_00792
+MS-------LLEVHDVDKSFTTA-ASEVPVLRGVSLSVPAGQMHAVTGPSGSGKSTLLRILACLDSPDAGEVLLEGVP--
+----LPPPWSRGGDRHRNRRCGIVLQDFALMEHATALDNVLLPLRYGPGGGSRAEQRRRAALALDRVGLADRAHHRARTL
+SGGEKQRVAVARALINDPPLVLADEPTGALDQARTRDVVK-LLRSAVGPQRAVVVVTHDPEVAAACDQRWHLEDGRLHSQ
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+------------------------------G
+>KD337_NAFOICDF_00870
+MTA---SAPVLTLDRVQVGYRHPDGGTRVLIESLDLTLAPGEVVGLWGRSGTGKSSLIRHLAGLSRPLAGRIAYRSPDGS
+LNGEVADLSAGDLARYRREHLGYVDQSCELIGELSALDNAAVWIHGGRIAGSACDAQETVQGLLERLGLGHRLGAPASRL
+SGGEAQRVALVRALSKRPHLIVADEPTGHLDGVTAREAIA-LLREHAEAGAAVLVASHDPLVHAAVDRAVRVGED-----
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+-------------------------------
+>KD337_NAFOICDF_00943
+MNTAPLTPPVLAARGLTKAY-----GSTHALTGVDLEIRPGESVAVMGPSGSGKTTLLHVLSGIIAPDGGRVTLAGADGT
+VH-EVTALTEEQRARLRRERLGFVFQEGLLLPELTAVENVAMPLMLN--GVDRRAAEQTAARWLGSLGLAGMEDRRPGEL
+SGGQRQRVAIARAQAVEPDVVFADEPTGALDSDTSEAVLDSLIASTVARGRTLVVVTHDPSVAAACSRLIRVRDGRIESD
+QAQAAAGTTREQV-------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+------------------------------R
+>SA211_MHAAABBN_01696
+--------------------------------------------------------------------------------
+------------------------------MEHATALENVMLPLRYGPDRVPRGEQRRRAGEALERVGLGMRTGHRARTL
+SGGEKQRVAVARALINEPPLVLADEPTGALDQARTRDVVD-LLRGAVGPERAVVVVTHDPRVAAACDRRWHLVDGELAPQ
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+------------------------------D
+>TT9_LFPAFLNI_00735
+MS-------LLTVHDVHRSYRGP-AGDVPVLRGVSLQVPGGGVHAIMGPSGSGKSTLLRLLACLDTPDAGSIRVAGRS--
+----LPAPWSSDGDAYRNRTCGIVLQDHLLIDRATAVDNAALPLLYARPRTSKRERRTMAAELLTRLGLGDRLHHPVGRL
+SGGERQRVAIARAVIMGPSLLLADEPTGALDEERTDEVMG-LFRSMSQPERAIVVVTHDPAVAARCDHTWRLRAGRLE--
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+-------------------------------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000048.fa

@@ -0,0 +1,50 @@
+>AS2_ACLBLIBL_01085
+MQPIDQTTSGPA-TSVGERPLAGIRVVSVAVNLPGPLAAARLAEFGAEVVKIEPPTGDPL
+AAAAPQWYAELIAGQRVLTLDLKTGPGQDHLATLLEGADLLLSSLRPSAADRLGLPASAH
+AA---GAVFLEVVGHDGDDADLPGHDLTYQAAAGTLDAPRM-----PLVPVADLLGGERA
+VSAALAALRSRDHGG---PATRVRVTLEDAARAAAAPVRRGLLGPGGPLGGDLPTYSLYA
+SADGHVAVAAVEPHFAARLAEHIG-------STRDEIARTILTRPGAEWERIANELDLPL
+---AVVRPPR-
+>KBS0714_MOLHKGIG_01791
+MQPIDQTTSGPA-TSVGERPLAGIRVVSVAVNLPGPLAAARLAEFGAEVVKIEPPTGDPL
+AAAAPQWYAELIAGQRVLTLDLKTGPGQDHLATLLKGADLLLSSLRPSAADRLGLPASAH
+AA---GAVFLEVVGHDGDDADLPGHDLTYQAAAGTLDAPRM-----PLVPVADLLGGERA
+VSAALAALRSRDHGG---PVTRVRVTLEDAARAAAAPVRRGLLGPGGPLGGDLPTYSLYA
+SADGHVAVAAVEPHFAARLAEHIG-------STRDEIARTILTRPGAEWERIANELDLPL
+---AVVRPPR-
+>KBS0714_MOLHKGIG_02047
+---------------MSAAPLAGVRVVTIALNLPGPAAAARLQELGADVVTVLPPSGDPV
+ATLVPALYEELHRGQSVRTVDMKSQAGVAEMEQILAEADVFLTSHRSGALRRLGLDADAV
+RARHRRICQVDITGYAGDRTDVPGHDINYQAAAGLLAPGAP-----PRILAADLHGAERA
+VSTALALLWARGADG---DGGHATVALAEAAHALALPNRHRMTDPRSPLGGALPHYGVYP
+AAEGHVAVGALEPHFAAALVEGLGLDADG--DVRAQLTEALSRHDAAHWQAWGEKRGIPL
+---TALVSPTA
+>KD337_NAFOICDF_00733
+MSAGDGASRVPAGDAVVPGPLADVAVVTIALNLPGPLAAFRLAELGAQVTTVLPPAGDPV
+ATLVPALYTELHAGMAELTLDLKQDGDRARMEELLAGADVLLTSHRSGALTRLGLDAAAT
+ARRHPRLVQVDITGFPGERADVPGHDLNYQAEAGLLEPGHP-----PRGLLADVHGAERA
+VSAALAGLHARDRDG---RGGGVVVALSDAAHAMALPTRHGMTDPGSPLGGANPFYGVYP
+ARSGHVALGALEPHFAHAMVEALQLDPDG--DVRAQLTAAFAERDADAWQSWGEEWGHPI
+---TALAGPTA
+>KD337_NAFOICDF_00743
+------------------------------------------------------------
+------------------------------------------------------------
+---------MDVVGFAGERAGVPGHDLTYQAETGLLLSGESQTPTLPRALVADMHGAEQA
+VSTAPALLLARDRAGRDAPGGHARVSLAEAAAAVGIPSRHGLLAPDALLGGGTPYYAVYR
+AAEGHVAVGALEPHFSDALRAELDLPAGAGDDLAAALSAALTARPARDWQEWGEERGIPT
+GRGAVNGQPR-
+>SA211_MHAAABBN_01753
+---------------MSAAPLAGVRVVTIALNLPGPVAAARLQELGADIVTVLPPSGDPV
+ATLVPALYEELHRGQSVRTVDMKSQAGAAEMEQILAEADVFLTSHRSGALRRLGLDADAV
+RARHRRICQVDITGYDGDRTDVPGHDINYQAAAGLLAPGAP-----PRILAADLHGAERA
+VSAALALLWARGADG---DGGHATVALADAAHALALPNRHRMTGPRSPLGGALPHYGVYP
+AAEGHVAVGALEPHFAAALVEGLGLDADG--DVRAQLTEALSRHDAAHWQAWGEERGIPL
+---TALASPTA
+>TT9_LFPAFLNI_01981
+---------------MSAAPLAGVRVVTIALNLPGPAAAARLQELGADVVTVLPPSGDPV
+ATLVPALYEELHRGQSVRTVDMKSQAGVAEMEQILAEADVFLTSHRSGALRRLGLDADAV
+RARHRRICQVDITGYAGDRTDVPGHDINYQAAAGLLAPGAP-----PRILAADLHGAERA
+VSTALALLWARGADG---DGGHATVALAEAAHALALPNRHRMTDPRSPLGGALPHYGVYP
+AAEGHVAVGALEPHFAAALVEGLGLDADG--DVRAQLTEALSRHDAAHWQAWGEKRGIPL
+---TALASPTA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000049.fa

@@ -0,0 +1,77 @@
+>AS2_ACLBLIBL_01099
+MLKRLLPMAGHTRGNRSAVTCALKCGNACSHPMPNTSANTTFQEIAETAISRRAALGVGGGLAAAVVIGAQVAQAPEALA
+DNGAAPRGGGKLDYRAIAPVPRTVDTVTVPEGYDWGTVIRWGDPLFADSEEFDILHQTGASQAGQFGYNNDYLNIISDGG
+NDRSGYLVSNHEYTNEYIMFPPAYIASNFTDVVDAAIEAHGLSIVDLKRAKQGAKWEYVRGGRRNRRITGTTPFTVTGPA
+AGHALLKTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGIGTGTTERRWEEVHDRFDLTAPG
+YENEANRFGWIVEIDPEDPASTPVKRTLLGRFKHEAGTAVVAPSGQAVVYSGDDERHDYLYKFVSAEKVVEGDKKHNMTL
+LDEGTLYVARFTGDSPASEIDGRGTLPSDGEFDGSGEWIALTTDKKSFVPGMSVAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVNGKVYMALTNNTRR-----TAVDEANPVVGNRDGHVIELTERGGDHASTRFDWVILLLAGDPAVSSSVYFSGFPQE
+KVSPISCPDNVAFDSAGNLWISTDGQPGAIGFGDALHKVTLDGPERGRVEQFLSVPRDAETCGPVVHDRDNSVFVNVQHP
+GENGMWGAQTSYFPDYLDPAGPVQVGDKVAAPRPSVVQVFDVTGNNGVGKGSGKDKGGKGKGNKG----------GKGKG
+PKA
+>KBS0714_MOLHKGIG_00836
+M-------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+-----------------------------------------------------------------GWEHEDPRFDARATG
+FANEPHRFGYIVEIDP----------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+---
+>KBS0714_MOLHKGIG_00837
+M-------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+-----------------------------GRFKHEGANVIVADDGHVVAYMGDDERFDYLYKFVSKDIYRKNDRRHNMTL
+LNEGDLYVARFSGTSDG-EIDGSGRVPADGTFDGSGRWIPLVQGGRSTVEGMAVDQVLVFTRLAADRVGATKMDRCEDVE
+PSPGSGKIYVACTNNSQRGVDGQATADEANPRTENRDGHIVEITEHRGDHTSTRFTWDLLMLCGDPSQGDATYFGGFPVD
+QVSPISCPDNLAFDTDGNLWISTDGAPDGIGYNDGLFKVAVEGRNRGQVAQFLSVPRDAETCGPVIHDDEAMVFVAVQHP
+GEEGSYTDIRSAFPDYV-PSEARPGDGEVRGPRPSIVQVYRT--------------------------------------
+---
+>KBS0714_MOLHKGIG_01778
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGTGLAAAVVIGSQVAQAPEALA
+DNGRRPTGGGKLPFEPIAPVTRTVDTMTVPEGYDWGTVIRWGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGG
+NDRSGYLVSNHEYTNENIMFSPEYIASNFEDVVNVGLQAHGLSIVELKCAKRGAQWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLTTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGISTSATRRGWEKVHDRFDLTKPG
+YENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAVISPSGHAVVYSGDDERHDYLYKFVSAEKVREGDKKHNMRL
+MDKGTLYVAKFSGDSPAAQIDGRGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKR-----TAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGDPAVSSSAYFAGYPKE
+KVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAERGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHP
+GEDGTWGAHTSYFPDFLSPTGPVQVGDKVAAPRPSVVQVFNATGNNGVGKGAGKEKGNKGKGNGN----GNGKGNGNGKG
+PKG
+>KD337_NAFOICDF_01023
+MLKRLLPMAGHTRGNRSAVTCELKCGNACSHPIPNTSANETFHSVAERAISRRAALGVGGGLAAAVVIGANVAHAPEALA
+DNGLRPAGGGKLDFTAIQPVQRTVDTMTVPEGYDWGTIIRWGDPLFADSEEFDIEHQTGASAAGQFGYNNDYLNIISDGG
+NHRRGYLVSNHEYTNENIMFSPEYIASNPEDVVNAGIESHGLSVVELERRKAGAKWEYVRGGRRNRRITGTTPFRVTGPA
+AGHDLLKTVEDPTGTRVLGTLNNCSGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGISTSATQRGWERFHDRFDLTKAG
+YENEAHRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAIISESGHAVVYSGDDERHDYLYKFVSSKKVIEGNKKHNMTL
+MDEGTLYVAKFTGDSPASEIDGKGTLPSDGAFDGSGEWIALASHKKSYVPGMSLAEVLVFTRIAADKMGATKMDRPEDVE
+TNPVNGKVYAALTNNTKR-----TAVDETNPVIGNRDGHVLEITEKCGDHTSTSFNWVILLLAGDPKVSSSAYFAGYPKE
+LVSPISCPDNVAFDSEGNLWISTDGQPGTIGYADALHKVTLDGPERGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHP
+GEDGNWGAHTSYFPDFLSPNGPVQVGDKVAAPRPSVVQVFNATGNNGIGKGSGNKKGNHGKGRGN-----SAFGHAQGHG
+PKK
+>SA211_MHAAABBN_01485
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGTGLAAAVVIGSQVAQAPEALA
+DNGRRPTGGGKLPFEPIAPVSRTVDTMTVPEGYDWGTVIRWGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGG
+NDRSGYLVSNHEYTNENIMFSPEYIASNFEDVVNVGLQAHGLSIVDLKRAKRGAPWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLKTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGISAAATSRGWEKVHDRFDLTKPG
+YENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAVISPSGHAVVYSGDDERHDYLYKFVSAEKVREGDKKHNMRL
+MDKGTLYVAKFSGDSPAAQIDGRGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKR-----TAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGDPAVSSSAYFAGYPKE
+KVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAERGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHP
+GEDGTWGAHTSSFPDFLSPTGPVQVGDKVAAPRPCVVQVFNATGNNGIGKGAGKEKGNKGKGNGNGNGKGNGKGNGNGKG
+PKG
+>TT9_LFPAFLNI_01707
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGTGLAAAVVIGSQVAQAPEALA
+DNGRRPTGGGKLPFEPIAPVTRTVDTMTVPEGYDWGTVIRWGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGG
+NDRSGYLVSNHEYTNENIMFSPEYIASNFEDVVNVGLQAHGLSIVELKRAKRGAPWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLTTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGISTSATRRGWEKVHDRFDLTKPG
+YENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAVISPSGHAVVYSGDDERHDYLYKFVSAEKVRDGDKKHNMRL
+MDKGTLYVARFSGDSPAAQIDGKGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKR-----TAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGDPAVSSSAYFAGYPKE
+KVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAERGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHP
+GEDGTWGAHTSYFPDFLSPTGPVQVGDKVAAPRPCVVQVFNATGNNGIGKGAGKEKGNKGKGNGNGNGKGNGKGNGNGKG
+PKG

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000050.fa

@@ -0,0 +1,64 @@
+>AS2_ACLBLIBL_01488
+---------------------MQTSLEGAGAAVTSREPIPVMTIHGEPVLGPTGRPKHDF
+PEPAPLSSHGPARIISMVNQKGGVGKTTSTINLGAALAGYGRKVLMVDFDPQGALSA---
+-----GLGANPHDLETTVYN-----VLMERSVTA----------------------RDAI
+LPTPF-EGMDLLPANIDLSAAEVQLVNEVAREQVLERALRQVRDDYDVVLIDCQPSL--G
+LLTVNALTASHGVIIPLTAEFFALRAVALLVETIE----------KVQDRL----NPD--
+LE-----IDGVLATMFD----QRTLHSKEVVGSLVAGFGDKVFETVIKRS----IKFADA
+TVAATP-ITLFAENHDGAKAYRQLARELIC-------RGG--------------------
+--AP
+>KBS0714_MOLHKGIG_00172
+---------------------MPGRLIGW-----PRKPTLLELLFG--------------
+---LAMWEHAVMQIISFFNHKGGVGKTTMLFNAAVEMGRLGKRILMVDFDAQANLTAISI
+DDDMLSMIYAPDEDGKTVAHAFAPLVGGSGDVFAPEAIEVREGKVWLAAGDLRLSEFDAI
+LPSAWTEALAGNERGFRVTSAPYRLICEIAEE---------IKADY--VFVDLGPNV--G
+ALNRAVLLGSDYMIIPMAADLFSIRALPSVGNSVDTWVRQWNTARSVAPRL----NFD--
+IQKGLPKVLGYVSQQFNIYRGEATLAFSHWIDEMPAQIQSGLLEPLAVHSDGKGATLADP
+AQSKGPGVGDLKNFHSLVPHAQTLRKAIFELRADDVVRGGQVTRARQSEEQFKELCANII
+ARAV
+>KBS0714_MOLHKGIG_01408
+MGEDPDTPTTAAAARRGPRPGVQTTVEGAGAAVTSREPIPVMTIHGEPVLGPTGRPKHDF
+PEPAPLTSHGPARIISMVNQKGGVGKTTSTINLGAALAGYGRRVLMVDFDPQGALSA---
+-----GLGANPHELDTTVYN-----VLMERSVTA----------------------KDAI
+LSTDF-ENMDLLPANIDLSAAEVQLVNEVAREQVLERALRQVRDDYDVVLIDCQPSL--G
+LLTVNALTASHGVIIPLTAEFFALRAVALLVETIE----------KVQDRL----NPD--
+LE-----IDGVLATMFD----QRTLHSKEVVGSLVAGFGDRVFETVIKRS----IKFADA
+TVAATP-ITLFAENHDGAKAYRQLARELIS-------RGG--------------------
+--AP
+>KD337_NAFOICDF_01399
+--------------------------------MTPKEPIPVMTVHGEPVLGPTGRPKHEF
+PEPTPLAGHGPARIISMVNQKGGVGKTTSTINLGAALAGYGRKVLMVDFDPQGALSA---
+-----GLGADPYELDVTVYN-----VLMERKVTA----------------------RDAI
+LPTAF-ENMDVLPANIDLSAAEVQLVNEVAREQVLDRALRQVKDDYDVVLIDCQPSL--G
+LLTVNALTASDGVIIPLTAEFFALRAVALLVETIE----------KVQDRL----NPD--
+LE-----IDGVLATMFD----QRTLHSKEVVGSLVDGFGDRVFETVIKRS----IKFADA
+TVAATP-ITVFAENHDGAKAYRQLARELIC-------RGG--------------------
+--AP
+>KD337_NAFOICDF_02230
+------------------------------------------------------------
+-----------MHTLMVYSEAGGVAKTTTAVSLAMSWAEQGRQVVLIDLDPRAAATK---
+-----WVDVEPTEPGLHIGA-----VIGNPDPTG-----------WV---------QDLA
+VPSGWHENLRVVPSDRSLSHQESDRADHAHLR--LRMALSDLQADL--VVIDC-PNRQGG
+PLTQNAFTASDGVIYAARPTSDGCDGVHGARQSVA----------AFKQSMALLGAPDRL
+VE-----VGIVVSDYRD----HITPKDQTVAVEELRETGLLLTPLVPARS-----IVPKA
+RLACDW-LGRYEKGEPVAAAYADLAGLIFE----------RITA----------------
+----
+>SA211_MHAAABBN_01138
+MGEDPDTPTTAAAARRGPRPGVQTTVEGAGAAVTSREPIPVMTIHGEPVLGPTGRPKHDF
+PEPAPLTSHGPARIISMVNQKGGVGKTTSTINLGAALAGYGRRVLMVDFDPQGALSA---
+-----GLGANPHELDTTVYN-----VLMERSVTA----------------------KDAI
+LSTDF-ENMDLLPANIDLSAAEVQLVNEVAREQVLERALRQVRDDYDVVLIDCQPSL--G
+LLTVNALTASHGVIIPLTAEFFALRAVALLVETIE----------KVQDRL----NPD--
+LE-----IDGVLATMFD----QRTLHSKEVVGSLVAGFGDRVFETVIKRS----IKFADA
+TVAATP-ITLFAENHDGAKAYRQLARELIC-------RGG--------------------
+--AP
+>TT9_LFPAFLNI_01358
+MGEDPDTPTTAAAARRGPRPGVQTTVEGAGAAVTSREPIPVMTIHGEPVLGPTGRPKHDF
+PEPAPLTSHGPARIISMVNQKGGVGKTTSTINLGAALAGYGRRVLMVDFDPQGALSA---
+-----GLGANPHELDTTVYN-----VLMERSVTA----------------------KDAI
+LSTDF-ENMDLLPANIDLSAAEVQLVNEVAREQVLERALRQVRDDYDVVLIDCQPSL--G
+LLTVNALTASHGVIIPLTAEFFALRAVALLVETIE----------KVQDRL----NPD--
+LE-----IDGVLATMFD----QRTLHSKEVVGSLVAGFGDRVFETVIKRS----IKFADA
+TVAATP-ITLFAENHDGAKAYRQLARELIC-------RGG--------------------
+--AP
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000052.fa

@@ -0,0 +1,189 @@
+>AS2_ACLBLIBL_02045
+MGEAD---------------------------------------------------------------------------
+---------------------------------------------------------------TPAP-------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--TPEGPL------------------------------------------------------------------------
+--AGRSFRLVAVAERPDWEPGLIAQLRAAGAAVVSTTEVV------------------------RTSSAHVDVLLAVDVE
+SAAALRAAGW--------------------------DRFQVWT-------------------VVQTDPGTPLMPRGLSAA
+G---VGRAV-AESRRVVVFDEASRS-AVESTLWNAA-----------GKVVVMP---------------------RF---
+--------------------------------------------------------------------------------
+-----------------------------TAEEVEAVSFGGNRVEGPH-EPGEAI----LVLHAGLLGSEGAH---VLRE
+YSDAVRARRHVRK---VLVVAPG----------------DLRVAVRSEEGQRHLA-RIPGASLIDGGAELSRAAAGRR-T
+VTVL--PRWST----------PQDSRAEDLLAWAAAVGAQVWAEPGA--VPPQVSGRPVG--QLPGDNL--------SAA
+LDWAD--QHAGGTTFGAAPINRVAQ-AFAPH-----VPALST----------VPAHPNA-PLKVLFVGADYKFAGDLVEA
+LILRPDAEVRVDQWKTNGDRPTPNSAELLAWADVVICEFASRNAVWASQH---IREHQRLIVHLHGYELRNPLIHDIVMD
+RVHTVVFASEFYRADAVVTTGWRVEQTAVIPNSVQSAELRRPKTADARFHLGLAGYVPELKRMDRALDLLEELLRRDDRF
+VLHLRGRHPWNYPYVWRHPLRRDTYLANYERLRSNPRLRRAVVFDDFGPD---MGNWF-RNIGWMLSPSTRETFHLAPAE
+GMASGAVPVVWRREGSDGIFPPESLVTDAASAADRIHRTAGDRDAYNSAARSA-IEFATRYEAGAVVDHWLRLILH---G
+ERPGGPPSPEHLQRARPVATALAGRADWNRVGRLLRDGRVEQAAAVAQEESRPAWEQPEDVRRLAAHVNGYSALAQRAHR
+LVPSAPCVPPLLPLAAGADSARSLTLTEGPAGTYVTRSGDIAVGRGDILDDVNAEFDRLVDQAFRIGAQNRATALTVIGD
+EMLALAGGAVAGWLGIPFVWDLTSQPAARDLLMRMRALPDAPTPQGRLALLAAASATRLIGAGPAERLPVPFETFIGMAD
+LDRPRRVGVIGRSLGDLVGRSWGEPVNLSPGRWREQTVPRLDVALLDAQVLHPRNAWRASEGNTGPLGALITHVRRHATP
+LAIVDLGHEGLDSAGIAQARRVDAVVTAHPDDVQRLHDVRIVPSQVAVSTAPWGIRSGEEHVLRPGDRVRLAMRMLGVAE
+TH
+>KBS0714_MOLHKGIG_00884
+MN------------------------------------------------------------------------------
+------THH-----------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+---------------------------------PDR--------------------------------------------
+--------------------------------------------------------------------------------
+------------------LTDAAGVRVLLYGDVDLNVI---DGSATWLPSLAETLAR-----------------------
+TGASVDVQLKAV-ERRDL---LTAPLRALTGVRVLTAEPAAGQGGMTPSRAADVLA-------RRDEESRYDVVLVRGIH
+ACLELADRGA--------------------------FPGRLWS-------------------YV-TEYG--YVEDGFPAG
+RVEELGRIA-AASRLMLAQTPQARA-VLEAMVPAAA-----------GRTELLSPMVPDGLVPAERAEAPADGPVRLVYT
+GKFAHDWRTDL---------------------------------------------------------------------
+-------------------------------------------------MPDVLT----ALHEAGVPAT--------LTM
+VGDKVHPERD----------RP-----------------GWAAAMRSRLEAERPDFEWTGA--------LSREESMAR-T
+AAADVSLGWRA----------PA-------LDLSLEISTKVLESCAV--GVPPLLNRTVAHEELLGADYPLFVDGVRDSA
+RDVAA--RIAAARHDLPALSRRVVE-AAAPYRMAARARALTGVMDRLGLLDRRPARGGS-RTRVVLAGHDLKFAGELVDL
+LRDDPGVELRIDHWQGLHRHDEAASRRLVEWADVVVCEWAGPNAVWYARH---KRPGQRLVVRLHMFELRGGWLSALETE
+AVDRLVTVSDLYRDLVREHLPIEPTRVTVIPNAVSVADLDRPGLPGRRFRLGLVGVVPLRKRLDRAVDLLEILRAHDERF
+TLHVRGRMPWEYPHEWRKPLQREGYLDLFARLGAGP-LREAVAFEPFGAD---MGSWL-TKIGWVLSPSTTESFHLAPAE
+GMVSGAVPLVWDRPGARGVFGDEFVLDDTDAAARRVLEAVADDARWDALSALA-RERVRAYDERVVAGLW-----REALG
+LD------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--
+>KBS0714_MOLHKGIG_00894
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+---------------------------------------------MNVAGARLRRWAGRA---RIVGERAAATAGDAGAS
+ALRAARGARG----------------------------LATLPERTWRAAD-VHV----PDASAALPLPAAAVLRRALTG
+ARV--PSLDAFSPLGPRPAAAPAVLLLPVDE-PAARGWSVEAAAELAARRCADLEMP-AGAPGLH--TVLMSDPASRRAL
+TAALRTAGGRLPGVLVVACPDPATAAGRARVLAALGLVDAVLAPEGTRLDPPLARAAARAGRAVIGP----------DRA
+A---------ETWERLAAAGRAARLDALTPAEAAG-PPAAPA----------PRVRVTAEPRRVVVAGHDLKFAGALMDR
+LRAD-GHEVRVDAWRGHARHDVERSRALAAWADVVHCEWSLGNLAWYSRHLDSPHRTTRLTSRLHLQEAGTAFPSRVRQD
+ALDEWVFVAEHVRAQVLRDTRFPASRTSVVPNAVAVPPTLPDGDDDRRFVLGLVGVLPERKGLHRALDLLAALRRVEPRY
+TLRIRGHHPEEVGWMAQRPAAAAYYRAQLRRIETDPVLAGAVTWDPHGPD---MPAWY-ARVGVALSVSDFESFHFTLPD
+GAAHGCLPAALAWAGADLLYPAAWLSPDVATMAEALRRATADARAWRSAVAQARRDVAHTYAEEDVVPALVRRIL----G
+GAA-----------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+A-
+>KD337_NAFOICDF_01944
+MRQIDEMALWTSRDVGVRVRYAGAEELIRGVRSRADATHDASDGGTDLEAADVAGPGTPEPSDHVAEVPWRLRVLNTGRV
+RQIRRWIYHARRAPAHAAAARVKRLLRTPGRWSETLRRPLARTRAAAPAPERADAAVA-----TPAPAAEPTGERTLAAL
+RAALAERPSASALHALVAALYRD-GQLRAPAAALEEHPELVGQFTPAQAKLARNVREQARLLDHPPVVPARAVGTALRPE
+AGRILYCAHGVHPYQ-SNGYAIRTRGIVAGLRDAGHDVVVAARPGFPWDAKVTRAAR----KKQSYPELVDGIEHVYSFG
+PSLRNQALAAYLESAVDSYLQVIARNRPAHVHAASNHITALPALIAARLSGLPFTYEVRGFWEYGMEPGEEGLQERGE--
+LAGRLEDLVMVEADHVFVLTAEMRDELRGRGVDPDRMTVTPNGVDPEQFQPLPAVGELHRRLGL-DPDRAVIGYLGSLVS
+YEGLEDLLEACLQLAEERDDFQLVVAGDGPVLPRLKEIAAERDTSLPVHLLGRIDADLIPALMSEVDVVACPRTATRVTR
+LVSPLKPLEALAAGVPVVLSDLPVLRSLAEECGG-AVVFPAGDRHGLAEAIAGLLDDPERRLDLGRSGRAWALRERRWDV
+LGAHLGSGILAAVPSTGAE----GGSRPLSTVRLGVIADTFTTSGLAEQVQTVPLQRAGQGWRRQLAEERLDAVF---VE
+SAWSGNDGAWTRGVGHYSDEESADLRALLEDCRAAGVPTVFWNKEDPVHFNRFVENARLFDLVLTTDNRSIQGYQARVDR
+SRQTVGSMAFFAQPSLHHPVTDGPAVADRPVMYAGSYYGDRYRDRSEVLRGLLHVARPFGVTIYDRQADLPDSPYRF--P
+EELQPFVEGGLPYSEMVKAYRRYPLHVNVNSVTASETMFSRRVMEISCAGGVVASGPSAGVNHMFRGLVPTIGRREVAER
+AMSTLLSDPGLRNVQGWNLRRLVRRSHTLSDRLLVLLRRLGLAV-SPDPTPGTTVVLTGPADRADWDGLLAQT-RPVDRV
+VAD--EMSETVRE---RLSAAG-----------------IEVSAGSASLDPAHLAWEWDGA-RLD--RVVHED------L
+ANVLLDSGYSA-------------AVLDTTPVTDLATPLAVVG------GAPVPSGASLVLRWGGGD----------DGV
+VTVRR--GLLESVEDLGAKQRPAAV-ALTPEALDRMER----------------------PLRVVVAGHDLKFAGELINR
+FRSD-GHEVRLDQWASHQDHDDELSRELVDWADVVLCEWGLGNAVWYSKH---KREGQRLYVRVHSQELFRDNWSRMNLP
+AVDRFIFVAPHIRDSARRYRGVAARPSEVIPNIV-LPGAGLKRDPDSRFVLGLVGIVPRGKRFDRALDLLAMLRREDPRY
+SLRVKGKQPEDYPWMAAREEEMAYYGTIRERIAQDPALQGAVHLDGFSTDRAELDRWY-SSIGIGLSVSDFESFHFTSVD
+GAQNGAVPAVLAWPGADRIFPAEWLSPTLESMARRIL-GLREPEVFRAAADTARRETSARFDGGRSLDRWSELVA----G
+E-------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--
+>SA211_MHAAABBN_00606
+MN------------------------------------------------------------------------------
+------THH-----------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+---------------------------------PDR--------------------------------------------
+--------------------------------------------------------------------------------
+------------------LTDAAGVRVLLYGDVDLNVI---DGSATWLPSLAETLAR-----------------------
+TGASVDVQLKAV-ERRDL---LTAPLRALTGVRVLPAEPAAGQGGMTPSRAADVLA-------RRDEESRYDVVLVRGIH
+ACLELADRGA--------------------------FPGRLWS-------------------YV-TEYG--YVEDGFPAG
+RVEELGRIA-AASRLMLAQTPQARA-VLEAMVPAAA-----------GRTELLSPMVPDGLAPAERAEAPADGPVRLVYT
+GKFAHDWRTDL---------------------------------------------------------------------
+-------------------------------------------------MPDVLT----ALHEAGVPAT--------LTM
+VGDKVHPERD----------RP-----------------GWAAAMRSRLEADRPDFEWTGA--------LSREESMAR-T
+AAADVSLGWRA----------PA-------LDLSLEISTKVLESCAV--GVPPLLNRTVAHEELLGADYPLFVDGVRDSA
+RDVAA--RIAAVRHDLPALSRRVVE-AAAPYRVAARARALTGVMDRLGLLDRRPARGGS-RTRVVLAGHDLKFAGELVDL
+LRDDPGVELRIDHWQGLHRHDEAASRRLVEWADVVVCEWAGPNAVWYARH---KRPGQRLVVRLHMFELRGGWLSALETD
+AVDRLVTVSDLYRDLVREHLPIDPARVSVIPNAVSVADLDRPGLPGRRFRLGLVGVVPLRKRLDRAVDLLEVLRAHDERF
+TLHVRGRMPWEYPHEWRKPLQREGYLDLFARLGAGP-LREAVAFEPFGAD---MGSWL-TKIGWVLSPSTTESFHLAPAE
+GMVSGAVPLVWDRPGARGVFGEEFVLDDTDAAARRVLEATADDARWDALSALA-RDRVRSYDERVVAGLW-----REALG
+LD------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--
+>SA211_MHAAABBN_00616
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+---------------------------------------------MNVAGARLRRWAGRA---RVVGERAVVTAGDAGAS
+ALRAARGARG----------------------------TATLPERTWRAAD-VHV----PDAAAALPLPAAAALRRALTG
+VRD--PSLDAFSPLGPRPAAAPAVLLLPVDDGPAARGWSVEAAAELAARRCADLQMP-AGAPGLH--TVLVTDPASRGAL
+IAALRPAGARLPGVLVVACPDPATAAGRARALAALGLVDAVLAPEGTRLDPALPSVAARAGRAVIGP----------DRA
+A---------ETWERLAAAGRAARLDSLTPAEATG-PPAAPG----------PRVRVTAEPRRVVVAGHDLKFAGALMER
+LRAD-GHEVRVDAWLGHARHDAERSRALAAWADVVHCEWSLGNLAWYSRHLDSPHRTTRLTSRLHLQEAGTAFPSRVRQD
+ALDEWVFVAEHVRAQVLRDTRFPAARTSVVPNAVAVPPTLPDGDDDRRFVLGLVGVLPERKGLHRALDLLAVLRRTEPRF
+TLRIRGHHPEEVGWMAQRPAAAAYYRAQLRRIETDPMLAGAVAWDPHGPD---MPAWY-ARVGVALSVSDFESFHFTLPD
+GAAHGCLPAALAWAGADLLYPAAWLSPDVATMADALRRATADARAWRSAVAQARRDVAHTYAEEDVVPALVCRIL----G
+GTA-----------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+T-
+>TT9_LFPAFLNI_00845
+MIQLF-------------LRFSRRQQLVMGL----------------FILLAVVGSVLAFLVDHAILIVALFWMLCAAVF
+VMI---MYH---------------------------RRLNAKINRTARAARMGSSAVAGRGGTRPATGRRISTQESLDSL
+QAAFARRRTVAAGLPLARKLIQERGDLSGAREVLDQLRGKSG-LTDSEENFVRRVDSLNRLLEADYPLPARHRTCNYLPV
+RGRVLY-AVGMSPVSVTNGYTSRTKGVAAGLVAQGLDVVVAPLPGKPWDKKSVVPGRRVPVKQRRDVSEIDGVRHVHNPG
+LPAWEGDLDVFFQVAADAYVREAMIEKPEFILAASNYLSALPALIAARRLGVPFVYEMRGFWEVSAASVRPGWEQSDQYR
+LDRRYEDLVAREADRVVVITDEMREDLAARGIDADKVTVAPNCVDPEVFAPLGKDHALLRGLGFTDTEAPVVGFAGSVTD
+YEGLDLVTDALATLKAEGVRFNFLIIGGGAYLDTLKARIATRGLDPETRFVMNVPNADMPAYLSSIDVFPLARKSLPVTE
+LVSPLKPLEAMAVGGAVVLSDVSPHKVFCGPDGDTAVSFQKDDLASLVERLRETLAAPDAARAMGVRARRWVKENRRWPV
+TGERIAASLMALAEEFRAS--LDDAERPLTDYTVAFIGDEFTTDTFVPELTALRVR--PEDWRETFEDHRVDALF---IE
+SAWRGNDSAWTGIIGYYDDETHAPVVELIAHCRLHEIPVMFWNKEDPVHFNRFKRTAALCDYVFTTDARTIVDYNALPDN
+QITTVASAPFAAQPLLHNPLPSTRA-QDEAIAYGGTYYGDKYATRKQGLDFLFYESAPHGLAIYERVHNDPNSPYRL--P
+DRFRRYARGSLSYPEMCQAYKAHPIHLNGNSVVDSPSMFSRRVVEITASGSTVLSSAGRGVDETLAGTVPTVTTPDEAAA
+YLEGWKSSEQRRHAGLWEAFRHVYETHTCAHRLVYMMRVAGFRVRSPQAAP-IAV----ECAAADVPLFEAQTMRPALYL
+VTDTTEGVDAASP---VVLAAP-----------------PERAAKLQEAGIRNVVIHREGAPALD--EHLVED------F
+SLALHFGHWKAVGTRTVEW-SPGDAHVRIAALTADIDEGTVLV------DADVYAGSVLGERPALAD----------DEV
+FAWQHVVEHVGKVTYTDSTAVPIDT-AVVHEEADPLPPVASG---EAGP---PVGETQTVPLNVLVAGHDLKFLPQIMAQ
+LEAA-GHRVIVDQWDGHDIHDEERSLRLLAEADVIFCEWALGNVKWYSHH---KQDDQRLVVRLHAQELRTRYLKDADLS
+AVDTFVFVSPVGMRRAQLLFGVPVDRSVVIGNTFDFERFAAPRNAPDPHALGLVGSVPHSKRLDLALDVTELLASHDPTY
+RLDVMGKEYHEYAWLMKRTAERSYFEAQYLRIESSAVLREAVRFGGHSYD---IAEWYRAKPGIILSTSDHEGTHQAIAE
+GGAAGCVPVIFPWAGAEAVYDDRWVVEGVRDAADRIRRYSSDPALFLEESERAQAFMRERFSPEEIGAQILAVVE----G
+RR------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000056.fa

@@ -0,0 +1,37 @@
+>AS2_ACLBLIBL_00019
+MANTTYTLVLLRHGQSDWNEKNLFTGWVDVPLTEKGRAEASRGGELMKAEGIHPDVLHTS
+LLKRAITTANLALETADRQWIPVKRDWRLNERHYGALQGKDKAQVKEEFGEEQFTVWRRS
+-FDTPPP-------ALDDSSEFSQIGDERYAELGDDAPRTEALKNVIDRLIPYWEAEIVP
+DLKASKTVLVAAHGNSLRALVKHLDGISDEDIAGLNIPTGIPLVYELDEDLKPITANGRY
+LDPEAAAAGAAAVAAQGSAH
+>KBS0714_MOLHKGIG_00318
+MANTTYTLVLLRHGQSEWNEKNLFTGWVDVPLTEKGRAEAARGGELLEAEGIRPDVVHTS
+LLKRAITTANLALEAADRQWIPVKRSWRLNERHYGALQGKDKAQVKEEFGEEQFMVWRRS
+-FDTPPP-------ALDDDSEFSQVGDERYADLGKDAPRTEALKQVVDRLLPYWEEQVLP
+DLKAGKTVLIAAHGNSLRALVKHLDGISDEDITGLNIPTGIPLVYELDQNFKPITANGRY
+LDPEAAAAGAAAVAAQGSAH
+>KD337_NAFOICDF_00015
+MAD-TFKLILLRHGQSDWNEKNLFTGWVDVPLTEKGRAEASRGGELLAAEGLLPDVLHTS
+LLKRAITTANLALEAADRQWIPVKRSWRLNERHYGALQGKDKAQVKEEFGEEQFMTWRRS
+-FDVPPP-------PLDDSSEFSQAGDERYRDIGPDAPRTEALKQVIDRLLPYWTEQIVP
+DLKAGKTVMVAAHGNSLRALVKHLDGISDEEISGLNIPTGIPLFYELDQNLKPVTPHGRY
+LDPEAAAAGAAAVAAQGDKK
+>KD337_NAFOICDF_00687
+M------LTLLRHGESTANEAGTFTGLLDVPLTHRGERQASAAGQLLRSNHITPDVVVTS
+TLRRAVRTAELVCDALGTQ-LPTEAVWQLNERNYGALTGMTKTDARRMLGDDEYVRLRRS
+RTGTPPPMSLHLWEELRSSSALRGLPDGALR-------RTEALSDVIKRVRPVLHDRLLP
+MVRSGRSVLVVAHGNSLRALCACIDDLTDPELEQLNLPTGQPVQYHLAPTGALVPRGGAF
+LDPVAAQHAAALVAAEGGT-
+>SA211_MHAAABBN_00033
+MANTTYTLVLLRHGQSEWNEKNLFTGWVDVPLTEKGRAEAARGGELLEAEGIRPDVVHTS
+LLKRAITTANLALEAADRQWIPVKRSWRLNERHYGALQGKDKAQVKEEFGEEQFMVWRRS
+-FDTPPP-------ALDDDSEFSQIGDERYADLGKDAPRTEALKQVIDRLLPYWEEQILP
+DLKAGKTVLIAAHGNSLRALVKHLDGISDEDIAGLNIPTGIPLVYELDQNFKPITANGRY
+LDPEAAAAGAAAVAAQGSAH
+>TT9_LFPAFLNI_00325
+MANTTYTLVLLRHGQSEWNEKNLFTGWVDVPLTEKGRAEAARGGELLAAEGIRPDVVHTS
+LLKRAITTANLALEAADRQWIPVKRSWRLNERHYGALQGKDKAQVKEEFGEEQFMVWRRS
+-FDTPPP-------ALDDDSEFSQVGDERYADLGKDAPRTEALKQVIDRLLPYWEEQVLP
+DLKAGKTVLIAAHGNSLRALVKHLDGISDEDIAGLNIPTGIPLVYELDQNFKPITANGRY
+LDPEAAAAGAAAVAAQGSAH
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000058.fa

@@ -0,0 +1,48 @@
+>AS2_ACLBLIBL_00038
+MSPFD--------------------------------LEELDMTAT------------APDPLDGAFTAAWLTSQTFAPV
+EYVV-PGLIPEGLTLLVAAPKVGKSWMVLDLAHAAATGGKALGSISVDRRPVLYLALEDGPRRLQSRLSMLGVDGGGPDL
+MFLTALSASPVATVAAYLERHAQDRPLVILDTL-----GKVRGRDGGNDQYGRDYSQMSALKTLVDAVPGSSLIVVHHTN
+KGGR-------EDFLEAVSGTQGLAGAADSILVIRRDRNQADGTINVTSRDAREGE-----------------------Y
+AVTFDGSRWHTVGA-DLAEAAAAAESKRATAGVGDDMARVIDAVSRHPGGVGVAQ------IVAMTELPRATVDKYLSRA
+VAAERIVRVERGTYAPTPLSEVSDCQIG-----------------------------SDPDPL-----------------
+----------------------DF
+>AS2_ACLBLIBL_00285
+MATKTAAKRAPGYRCTECGWTTVKWVGRCGECQAWGTVEEVGLTSTTGRTRAATVAEVAPRIADVDATLASFRSTGVREL
+DRVLGGGLVPGAVILLAGEPGIGKSTLLLDVAAQTARGAGGGGP-----RSVLYLTGEESAAQVRSRADRIGAIA---DT
+LRLTA--ETDLGRALGQIER--TDPELVIVDSVQTLQSTEVDGIAGGVSQ----VREVAASLIRTAKEKGITTVLVGHVT
+KDGTIAGPRLLEHLVDVVCQFEG--DRHSRLRLVRAVKNRFGPTDEVGCFDLREDGIESLDDPSGLFLSGVAEPVEGTCV
+TVTLEGRRPLVAEVQSLLTPSAGGGPRRTVSGVDAARVNMLLAVLQRRARFALAQDDCYVATVGGVRLSEPASDLAVAVA
+VASAKLA-------APVPQGMIAVGELGLAGEVRPVPGIGRRVREAARLGFTRALVPRSPEPLGDVPAGFTVAQVGSIGE
+ALATIPTWTGA-GAGA--------
+>KBS0714_MOLHKGIG_00105
+MATKTAPKRAPGYRCTECGWTTVKWVGRCGECQSWGTVEEIGLTSTTGRTRAATVAEVAPRIADVDATLASFRSTGVREL
+DRVLGGGLVPGAVILLAGEPGIGKSTLLLDVAAQTARGAGGGGP-----RSVLYLTGEESAAQVRSRADRIGAIA---DT
+LRLTA--ETDLGRALGQIER--TDPELVIVDSVQTLQSTEVDGIAGGVSQ----VREVAASLIRTAKEKGITTVLVGHVT
+KDGTIAGPRLLEHLVDVVCQFEG--DRHSRLRLVRAVKNRFGPTDEVGCFDLREDGIESLDDPSGLFLSGVSEPVEGTCV
+TVTLEGRRPLVAEVQSLLTPSAGGSPRRTVSGVDAARVNMLLAVLQRRARFALAQDDCYVATVGGVRLSEPASDLAVAVA
+VASAKLS-------APVPQGMIAVGELGLAGEVRPVPGIGRRVREAARLGFTRALVPRSPEPLGDVPAGFTVAEVGSIGE
+ALATIPTWTGG-GPAAHPEAGPGR
+>KD337_NAFOICDF_00231
+MATKSSTKRAPSYRCTECGWTTVKWVGRCGECQAWGTVEEAGGAATAGRTHASTVAQAAPRIRDVDATLASFRTTGVREL
+DRVLGGGLVPGAVILLAGEPGIGKSTLLLDVAAQTARGAAGGGP-----RDVLYLTGEESAAQVRSRADRIGALA---DT
+LRLAA--ETDLGRALGQIEK--TDPALVIVDSVQTLQSTEVEGVAGGVTQ----VREVAASLIRTAKEKGITTILVGHVT
+KDGSIAGPRLLEHLVDVVCQFEG--DRHSRLRLVRAVKNRFGPTDEVGCFDLREDGIESLDDPSGLFLSGTQEPVEGTCV
+TVTLEGRRPLVAEVQALLTPSGGGSARRTVSGVDAARVNMLLAVLQRRARFALAQDDCYVATVGGVRLSEPASDLAVAVA
+IASAKLG-------APVPQGMIAVGELGLAGEVRPVPGIGRRVREAARLGFTRALVPRSPEPLGDVPAGFSVAQVGTLSE
+ALGTIPSWTGQRSPGARS------
+>SA211_MHAAABBN_02118
+MATKTAPKRAPGYRCTECGWTTVKWVGRCGECQSWGTVEEIGLTSTTGRTRAATVAEVAPRIADVDATLASFRSTGVREL
+DRVLGGGLVPGAVILLAGEPGIGKSTLLLDVAAQTARGAGGGGP-----RSVLYLTGEESAAQVRSRADRIGAIA---DT
+LRLTA--ETDLGRALGQIER--TDPELVIVDSVQTLQSTEVDGIAGGVSQ----VREVAASLIRTAKEKGITTVLVGHVT
+KDGTIAGPRLLEHLVDVVCQFEG--DRHSRLRLVRAVKNRFGPTDEVGCFDLREDGIESLDDPSGLFLSGVSEPVEGTCV
+TVTLEGRRPLVAEVQSLLTPSAGGSPRRTVSGVDAARVNMLLAVLQRRARFALAQDDCYVATVGGVRLSEPASDLAVAVA
+VASAKLS-------APVPQGMIAVGELGLAGEVRPVPGIGRRVREAARLGFTRALVPRSPEPLGDVPAGFTVAEVGSIGE
+ALATIPTWTGG-GPAARPEAGPGR
+>TT9_LFPAFLNI_00100
+MATKTAPKRAPGYRCTECGWTTVKWVGRCGECQSWGTVEEIGLTSTTGRTRAATVAEVAPRIADVDATLASFRSTGVREL
+DRVLGGGLVPGAVILLAGEPGIGKSTLLLDVAAQTARGAGGGGP-----RSVLYLTGEESAAQVRSRADRIGAIA---DT
+LRLTA--ETDLGRALGQIER--TDPELVIVDSVQTLQSTEVDGIAGGVSQ----VREVAASLIRTAKEKGITTVLVGHVT
+KDGTIAGPRLLEHLVDVVCQFEG--DRHSRLRLVRAVKNRFGPTDEVGCFDLREDGIESLDDPSGLFLSGVSEPVEGTCV
+TVTLEGRRPLVAEVQSLLTPSAGGSPRRTVSGVDAARVNMLLAVLQRRARFALAQDDCYVATVGGVRLSEPASDLAVAVA
+VASAKLS-------APVPQGMIAVGELGLAGEVRPVPGIGRRVREAARLGFTRALVPRSPEPLGEVPAGFTVAEVGSIGE
+ALATIPTWTGG-GPAARPEVGPGR

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000060.fa

@@ -0,0 +1,144 @@
+>AS2_ACLBLIBL_00067
+M-----SGPA-ETAAGAPT--PAADVVLGRFTEPTRAWFTGAFEAPTPAQLGAWDAISSGRHALVIAPTGSGKTLSSFLW
+ALDSFVREPAAEGTAATRVLYVSPLKALGVDVERNLRAPLVGITQTAAGLGRPVPRVRVGVRSGDTPAAERRRLQQDPPD
+ILITTPESLYLMLTSQARSA---LAGVRTVIVDEVHAVAGTKRGAHLAVSLERLDSLLETPVQRIGLSATVEPASEVARF
+LGGTQPVTVVRPASAKRWDLTVTVPVPDLTDLSSPSAAHDLGPGSSPGGPGAEGGPGGAVTGGSIWPHVEERIVDLVAER
+RSTLVFANSRRLAERLTGRLNEIWEARLEAAAAVEDPDAVPGFRTPGAG----------------AGAASSTPATPSSSY
+-PAQVAGQTGTGSGTVSDFARAHHGSVSKEQRAIVEEALKTGRIRCVVATSSLELGIDMGAVDQVIQVESPPSVASGLQR
+VGRAGHQVGEVSRGVFFPKHRGDLVDTAVVAERMTAGRIEALRIPANPLDILAQQTVAAVAVADLDAQEWFDLVRRSAPF
+ATLPL------SAYESVLDLLAGRYPSDEFAELRPRILWDRENGTLAARPGAQRLAVTSGGTIPDRGLFGVFLASDGGPD
+GAPGGAAAGDTAE-----SAGSARSGGRRVGELDEEMV-YESRVGDVILLGATSWRIVDITADRVLVLPAYGQPGKLPFW
+RGDAAGRPAELGDAVGRFRRELDADPAAGRERLAAAGLDAWAQDNLLAYLKDQREATGVLPTEQTLVVERFTDELGDWRV
+VLHSPYGMAVHAPWALAVGARLAQRYGLETGSGAAMAADDGIVLRIPLMDAEPPGAELFEFTAEELEEIVTAE--VGGSA
+LFAARFRE----NAARSLLLPRRDPGRRTPLWQQRQRSAQLLDVARKHPRFPVILETVREVLQDVYDLPALKDLAGRVAS
+RAVRLVEVTTPAPSPFSQSILFGYVAQFIYEGDSPLAERRAAALSLDPTLLAELLGTEELRELLDAGIIAEVEAQLQRLA
+PDRRARGVEGVADLLRLLGPLSAAEAARRVRPEAGADD-------DGGAAAADVAAVGEMLAGLERAGRAFRLRQDGVER
+FAAVEDAARLRDTLGTPIPHGVPAAFLEPVDDPLGDLVSRYARTHGPFTAAEVGAALGLGGAVVLPVLQRLATERRVSTG
+AFRPDGAPGATGLDAEWCDAEVLRRIRLRSLAALRAEVEPVDQSAYARFLADWQHLRPRVGRDGAWRPPATLEGVDGVAT
+VLDQLAGTPLPASAWESLVLPTRVRDYAPALLDELLATGEYVWSGVAEAAGNDGWVALHPADAVDLTLRLPERPDGTGPD
+AAAPRDAAL--RADVREVLAGGGAWFFPQLVERVRAAQSARL--------GTGGP-DGH--GADLARGPAVLEALWGLVW
+AGEVGNDTFAPVRGLLSLGKTAHRTGRQTPRARTARTGGAGAGTA---GRGLGGRLAGVRGRGRYAGLASPDGGARGTAG
+PAAGMAGLSAAEQARAAGRWSLLPAAERDPTIRAHATAELLLDRYGVITRGSVVAEEVPGGFAGQYRLLTRMEDAGQVRR
+GHFVAGLGGAQFSTGAVVDRLRGFQDDDGADAPA----APRLDAFGLPLPAAP---------------------------
+--------AEQRTPAALALAATDPANPYGAALDWPSVPAGPDGVVPTGHRPGRKAGAVVVLIRGELALYMERGGKTLLCF
+TQGAAELKAAAEALVWALRTGRTERLSLEKVNGGPVLGTPLAEAMLAAGFYSSPSGLRYRS
+>KBS0714_MOLHKGIG_00287
+M-----SGPA-ESAAGTAT--PAADVVLGRFTEPTRAWFTGAFETPTPAQLGAWDAISSGRHALVIAPTGSGKTLSSFLW
+ALDSFVREPAAEGTAATRVLYVSPLKALGVDVERNLRAPLVGITQTAAHQGRPVPRVRVGVRSGDTPAAERRRLQQDPPD
+ILITTPESLYLMLTSQARAA---LTGVRTVIVDEVHAVAGTKRGAHLAVSLERLDALLDAPVQRIGLSATVEPAAEVARF
+LGGTQPVTVVRPASAKRWDLTVTVPVPDLTDLSSPAAAHDLGPGSSTGGLGDE----GAVTGGSIWPHVEERIVDLVAER
+RSTLVFANSRRLAERLTGRLNEIWEARAEAAAAAEHPDAVPGFRTP----------------------------DPTGFH
+GPAQVAGQTGTGSGTVSDFARAHHGSVSKEQRAIVEEALKTGQIRCVVATSSLELGIDMGAVDQVIQVESPPSVASGLQR
+VGRAGHQVGEVSRGVFFPKHRGDLVDTAVVAERMTAGRIESLRIPANPLDILAQQTVAAVAVADLDAQEWFDLVRRSAPF
+ATLPF------SAYESVLDLLAGRYPSDEFAELRPRILWDRENGTLAARPGAQRLAVTSGGTIPDRGLFGVFLASDGGAD
+GTPGGAAAGDTAESAGTASAGSARSGGRRVGELDEEMV-YESRVGDVILLGATSWRIVDITADRVLVLPAYGQPGKLPFW
+RGDAAGRPAELGDAVGRFRRELDADPEAGRTRLGAAGLDPWAQDNLLAYLKDQREATGVLPTEQTLVVERFTDELGDWRV
+VLHSPYGMAVHAPWALAVGARLAQRYGLETGSGAAMAADDGIVLRIPLMDAEPPGAELFEFTAEELDEIVTAE--VGGSA
+LFAARFRE----NAARSLLLPRRDPGRRTPLWQQRQRSAQLLDVARKHPRFPVILETVREVLQDVYDLPALKELAGRVSS
+RAVRLVEVTTTAPSPFSQSILFGYIAQFIYEGDSPLAERRAAALSLDPALLSELLGTEELRELLDAEVIAEVEAQLQRLA
+PDRRARGVEGVADLLRLLGPLSVAEAARRTRAEGEAEE------------AADEAAVAGMLAELERAGRAFRLRQDGVER
+FAAVEDAARLRDALGTPIPHGVPTAFLDPVDDPLGDLVGRYARTHGPFTAAEAGAALGLGGAVVLSVLQRLATERRVSTG
+AFRPEGTPGAASLDAEWCDAEVLRRIRMRSLAALRAEVEPVDQAAYARFLADWQHLRPRTGRDGAWRPPATLEGVDGVAT
+VLDQLAGTPLPASAWESLVLPARVRDYAPALLDELLATGEYVWSGVGEATGNDGWVALHPADAVDLTLRLPE------PA
+EETPADAAL--RAAVLEVLAGGGAWFFPQLVERVRAVQAAAGDGGTGTAGGTGGP-DPHRDPADLARGPAVLAALWGLVW
+DGRVGNDTFAPVRGLLSLGKTAHRTGRQTPRARTARTGGAAGAAA---GRGLGGRLAGVRGRGRYAGLTSSEGGARGTAG
+LTAGTVGLSAAEQARSAGRWSLLPAAEQDPTIRAHATAELLLDRYGVITRGSVVAEEVPGGFAGQYRLLTRMEDAGQVRR
+GHFVDGLGGAQFSTGAVVDRLRGFQRDE-EDA------------------------------------------------
+--------AVDTAPLALALAATDPANPYGAALDWPSVPAGPDGVVPTGHRPGRKAGAVVVLIAGRLALYMERGGRTLLAF
+TEESGELRAAAEALVWALRTGHTERLSLEKVNGGPVLGTPLAEALLAAGFYSSPSGIRFRN
+>KBS0714_MOLHKGIG_01958
+M-TTSVEGFS------------ALDPVIQHHIVNTLRW-----PDLRPLQKASVASLLAGHDALLLAPTAGGKTEAAFFP
+VLTRAEREQ----WTGTSVLYVAPLKALLNNVESRAMEYTSWLGRSA------------SVRHGDTTQAERRRQGTERPD
+VLMTTPESLESMLISPTVNVTDFFSELRTIIVDEVHAFAGDDRGWHLLSVLERLSAVVRRPIQRIGLSATVGNPEELLTW
+LQGGNAAAGL-PAS-------VIAPPVDRTGAAAPELRLDF-VGSEDNAATVI----SRLHGG------EKR--------
+---LVFAESRRTVELLGNALHE---------------------------------------------------RDVTTFL
+----------------------SHSSLSLSERRRSEQAFAEAQDCVIISTSTLELGIDVGDLDRVLQLGAPSTVASFLQR
+LGRTGRRPGAQRNMLFLELKPADLLRAAGLLLLHGEGYVEPIQPPPAPHHIVAQQILA------LTLQK--GQLQRGAAL
+AGLQALGMSDSTTYRTIEDGLL------EHGHL------DSDGGLLFVGPETQR----RYGGLYFRDLMAVF--------
+----------TVE-----AEFPVFHGRTEIGSVAPNWIATDPDDQPLLILAGRSWKVSFIDWKRHLVHVERSDRGLAPRW
+ASPPRALSWALSDAMRRVL--LGADP-------AGVVLTGRAQDA----LADHREAEGYTAAADHTVLASTADDLRWW--
+----TWGGAGANALLVAALEQVAPEL-----LGEKLRFDNFSLRLRGDVDAASLGRALRQATSNFGGDLAGVDPLVDDAA
+VRGLKFHEMLPLDLARATLAARL--ADHTGVARVLERPVQMLRTAE----------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------DGR---------------MWG---
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+--------------------------------------------------------------------------------
+-------------------------------------------------------------
+>KD337_NAFOICDF_00046
+MREDGGEGPAPEEAAPSPAAVPDADAVLARFSEPTRRWFTGAFAAPTAAQLGAWDAISSGRHALVVAPTGSGKTLSSFLW
+ALDSFVREPAEPDVSATRVLYVSPLKALGVDVERNLRAPLIGITQTARSLGAPVPEVRVGVRSGDTPAAERRRLQQDPPD
+ILITTPESLYLMLTSKARSA---LSGVRTVIVDEVHAVAGTKRGAHLAVSLERLDALLDSPVQRIGLSATVEPAAEVARF
+LGGVQPVTVVRPVSAKRWDLTVTVPLPDMTDLSTPPPSA-LDAGRDGAAAGVP----GEATGGSIWPHIEERIVDLVAPR
+RSTIVFANSRRLAERLTGRLNEIWEARQEAAAAVHDPDLVPGFRTPSTAGEVLTDWLGTATGQTPAGAPRPPGGSAATSF
+-PAQVAGQTGTGSGTVSDFARAHHGSVSKEQRALVEEALKTGRIRCVVATSSLELGIDMGAVDQVIQVESPPSVASALQR
+VGRAGHQVGEVSRGVFFPKHRGDLVDTAVVAERMAAGRIEALRIPQNPLDILAQQTVAAVALEDVDAEEWFDLVRRSAPF
+SALPH------SAYESVLDLLAGRYPSDEFAELRPRILWDRELGELSARPGAQRLAVTSGGTIPDRGLFGVFLATE-ASD
+GAPGGAALGDTAESASGASSGSKRSGGRRVGELDEEMV-YESRVGDVILLGATSWRIVDITADRVLVLPAYGQPGKLPFW
+RGDAAGRPAELGDAVGRFRRELDADPDAARDRLAAAGLDEWARENLLTYLADQRESTGRLPTEQALVVERFTDELGDWRV
+VLHSPYGMAVHAPWALAVGARLAQRYGLETGSGAAMAADDGIVLRVPLMDAEPPGAELFEFSAEELEEIVTAE--VGGSA
+LFAARFRE----NAARALLLPRRDPGRRTPLWQQRQRSAQLLDVARKYPSFPVILETVREVLQDVYDLPALKDLAGRIAS
+RAVQMVEVTTPAPSPFAQSILFGYVAQFIYEGDSPLAERRAAALSLDPALLAELLGTEELRELLDPEVIARVEAELQRTA
+PDRRVRGAEALADLLRIVGPLSVAEAAARTLPVEDAAPAPADEAAAGAPSAAHLAAVTAHLEGLERTGRAYRVRLNGEER
+FAAVEDAARLRDALGAPIPLGVPVAFHEPVEDPVGDLVSRYARTHGPFTAAEAGAALGLGGAVVLPVLQALASQRRVSQG
+AYRPDGTPGATGLEAEWIAAEVLQKVRRRSLAALRAEVEPVDQAAYARFLADWQHLRPRPGRPS----PATLEGVDGVAT
+VLDQLAGVPLPASAWESLVLPSRVRDYTPGLLDELLATGEYVWSGTADAPGNDGWVALHPADAVDLTLRRPE------PP
+AQDVAAERLTARDHLLTVLAGGGAWFFGPLVERVRADAARAAE---AEAGGEDGPRDPHAAAATLPRGPVILEALWDLVW
+AGRVGNDTFAPIRGLLSLGKTAHRTGRQTPRARTARTGGAALSAAGTGGRGLGGRLAGVRGRGRYAGLAAPGSGAGAGTL
+PGAGLVGLSAAEEARAAGRWSLLPDPEPDPTIRAHAAAEVLLDRYGVITRGSVVAEEVPGGFAGQYQLLTRMEDAGQVRR
+GHFVDRLGGAQFSTGAVVDRLRSFQRDEDGPSPAEEEPAPRLDAFGMPVDESPRTDWSGWVADGVGGWTPAPQGHGAGMG
+TVGGAAGAREEPLPPALALAATDPANPYGAALDWPDLPAGPDGVAPTGHRPGRKAGAVVVLVHGALALYMERGGRTLLAF
+TQDGPVLRAAAQALVWALRAARTDKLSLEKVNGGPLLGTPLAEALLAAGFYSSPSGIRYRS
+>SA211_MHAAABBN_02309
+M-----SGPA-ETAAGAPT--PAADVVLGRFTEPTRAWFTGAFEAPTPAQLGAWDAISSGRHALVIAPTGSGKTLSSFLW
+ALDSFVREPAAEGTAATRVLYVSPLKALGVDVERNLRAPLVGITQTAAHQGRPVPRVRVGVRSGDTPAAERRRLQQDPPD
+ILITTPESLYLMLTSQARAA---LAGVRTVIVDEVHAVAGTKRGAHLAVSLERLDALLDTPVQRIGLSATVEPAAEVARF
+LGGTQPVTVVRPASAKRWDLTVTVPVPDLTDLSSPAAAHDLGPGSSTGGLGDE----GAVTGGSIWPHVEERIVDLVAER
+RSTLVFANSRRLAERLTGRLNEIWEARAEAAAAAEHPDAVPGFRTP----------------------------DPTGFH
+GPAQVAGQTGTGSGTVSDFARAHHGSVSKEQRAIVEEALKTGQIRCVVATSSLELGIDMGAVDQVIQVESPPSVASGLQR
+VGRAGHQVGEVSRGVFFPKHRGDLVDTAVVAERMTAGRIESLRIPANPLDILAQHTVAAVAVADLDAQEWFDLVRRSAPF
+ATLPF------SAYESVLDLLAGRYPSDEFAELRPRILWDRENGTLAARPGAQRLAVTSGGTIPDRGLFGVFLASDGGAD
+GAPGGAAAGDTAESASTASAGSARSGGRRVGELDEEMV-YESRVGDVILLGATSWRIVDITADRVLVLPAYGQPGKLPFW
+RGDAAGRPAELGDAVGRFRRELDADPEAGRTRLAAAGLDPWAQDNLLAYLKDQREATGVLPTEQTLVVERFTDELGDWRV
+VLHSPYGMAVHAPWALAVGARLAQRYGLETGSGAAMAADDGIVLRIPLMDAEPPGAELFEFTAEELDEIVTAE--VGGSA
+LFAARFRE----NAARSLLLPRRDPGRRTPLWQQRQRSAQLLDVARKHPRFPVILETVREVLQDVYDLSALKELAGRVSS
+RAVRLVEVTTTAPSPFSQSILFGYIAQFIYEGDSPLAERRAAALSLDPALLSELLGTEELRELLDAEVIAEVEAQLQRLA
+PDRRARGVEGVADLLRLLGPLSVAEAARRTRAEGEAEE------------AADEDAVAGMLAELERAGRAFRLRQDGVER
+FAAVEDAARLRDALGTPIPHGVPTAFLDPVDDPLGDLVGRYARTHGPFTAAEAGAALGLGGAVVLSVLQRLATERRVSTG
+AFRPEGTPGATGLDAEWCDAEVLRRIRMRSLAALRAEVEPVDQAAYARFLADWQHLRPRTGRDGAWRPPATLEGVDGVAT
+VLDQLAGTPLPASAWESLVLPARVRDYAPALLDELLATGEYVWSGVGEATGNDGWVALHPADAVDLTLRLPE------PA
+EETPADAAL--RAAVLEVLAGGGAWFFPQLVERVRAVQAAGGDA--GGAGRAVGP-DPHRDPADLARGPAVLAALWGLVW
+DGRVGNDTFAPVRGLLSLGKTAHRTGRQTPRARTARTGGAAGAAA---GRGLGGRLAGVRGRGRYAGLTSPEGGARGSAG
+LTAGTVGLSAAEQARSAGRWSLLPAAEQDPTIRAHATAELLLDRYGVITRGSVVAEEVPGGFAGQYRLLTRMEDAGQVRR
+GHFVDGLGGAQFSTGAVVDRLRGFQRDE-EDA------------------------------------------------
+--------AVDTAPLALALAATDPANPYGAALDWPSVPAGPDGVVPTGHRPGRKAGAVVVLIAGRLALYMERGGRTLLAF
+TEDPGELRAAAEALVWALRTGRTERLSLEKVNGGPVLGTPLAEALLAAGFYSSPSGIRFRN
+>TT9_LFPAFLNI_00293
+M-----SGPA-ETAAGAPT--PAADVVLGRFTEPTRAWFTGAFEAPTPAQLGAWDAISSGRHALVIAPTGSGKTLSSFLW
+ALDSFVREPAAEGTAATRVLYVSPLKALGVDVERNLRAPLVGITQTAAHQGRPVPRVRVGVRSGDTPAAERRRLQQDPPD
+ILITTPESLYLMLTSQARAA---LAGVRTVIVDEVHAVAGTKRGAHLAVSLERLDALLDTPVQRIGLSATVEPAAEVARF
+LGGTQPVTVVRPASAKRWDLTVTVPVPDLTDLSSPAAAHDLGPGSSTGGLGDE----GAVTGGSIWPHVEERIVDLVAER
+RSTLVFANSRRLAERLTGRLNEIWEARAEAAAAAEHPDAVPGFRTP----------------------------DPTGFH
+GPAQVAGQTGTGSGTVSDFARAHHGSVSKEQRAIVEEALKTGQIRCVVATSSLELGIDMGAVDQVIQVESPPSVASGLQR
+VGRAGHQVGEVSRGVFFPKHRGDLVDTAVVAERMTAGRIESLRIPANPLDILAQHTVAAVAVADLDAQEWFDLVRRSAPF
+ATLPF------SAYESVLDLLAGRYPSDEFAELRPRILWDRENGTLAARPGAQRLAVTSGGTIPDRGLFGVFLASDGGAD
+GAPGGAAAGDTAESASTASAGSARSGGRRVGELDEEMV-YESRVGDVILLGATSWRIVDITADRVLVLPAYGQPGKLPFW
+RGDAAGRPAELGDAVGRFRRELDADPEAGRTRLAAAGLDPWAQDNLLAYLKDQREATGVLPTEQTLVVERFTDELGDWRV
+VLHSPYGMAVHAPWALAVGARLAQRYGLETGSGAAMAADDGIVLRIPLMDAEPPGAELFEFTAEELDEIVTAE--VGGSA
+LFAARFRE----NAARSLLLPRRDPGRRTPLWQQRQRSAQLLDVARKHPRFPVILETVREVLQDVYDLPALKELAGRVSS
+RAVRLVEVTTTAPSPFSQSILFGYIAQFIYEGDSPLAERRAAALSLDPALLSELLGTEELRELLDAGVIAEVEAQLQRLA
+PDRRARGVEGVADLLRLLGPLSVAEAARRTRAEGEAEE------------AADEDAVAGMLAELERAGRAFRLRQDGVER
+FAAVEDAARLRDALGTPIPHGVPTAFLDPVDDPLGDLVGRYARTHGPFTAAEAGAALGLGGAVVLSVLQRLATERRVSTG
+AFRPEGTPGATGLDAEWCDAEVLRRIRMRSLAALRAEVEPVDQAAYARFLADWQHLRPRTGRDGAWRPPATLEGVDGVAT
+VLDQLAGTPLPASAWESLVLPARVRDYAPALLDELLATGEYVWSGVGEATGNDGWVALHPADAVDLTLRLPE------PA
+EETPADAAL--RAAVLEVLAGGGAWFFPQLVERVRAVQAAAGDGGTGAAGGAVGP-DPHRDPADLARGPAVLAALWGLVW
+DGRVGNDTFAPVRGLLSLGKTAHRTGRQTPRARTARTGGAAGAAA---GRGLGGRLAGVRGRGRYAGLTAPEVGARGSAG
+LTAGTVGLSAAEQARSAGRWSLLPAAEQDPTIRAHATAELLLDRYGVITRGSVVAEEVPGGFAGQYRLLTRMEDAGQVRR
+GHFVDGLGGAQFSTGAVVDRLRGFQRDE-EDA------------------------------------------------
+--------AVDAAPLALALAATDPANPYGAALDWPSVPAGPDGVVPTGHRPGRKAGAVVVLIAGRLALYMERGGRTLLAF
+TEEPGELRAAAEALVWALRTGRTERLSLEKVNGGPVLGTPLAEALLAAGFYSSPSGIRFRN

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000061.fa

@@ -0,0 +1,37 @@
+>AS2_ACLBLIBL_00071
+MTVLTPAWFAASGGVPTMGAGAAAASGAGAWDPSALLDSLGAWFHPLTALLVALDAPI--
+PPVPSEVFVIGSGALAAEGRVGLAAAVLTAWLGCWAGD-VGLYALFRHGLADRLD--RWA
+WWRRVHRGIRVLLVRVGPAGSLAGLSVLRFVSGGRTASMAAAGIGGIRWPVFLWLSGAGS
+LAWSGWMVGLGWLTGRTTGLPWWASAVVGMVFGTLAGLIIAGVVA-RRRARKG-------
+---
+>KBS0714_MOLHKGIG_00282
+MT----------GG-----------------DPAALMDALGAWFHPLTALLVALDAPI--
+PPVPSEVVVIGSGALAAEGRVSPVAAVLAAWLGCWAGD-VGLYALFRHGLADRLD--RWA
+WWRRIHRGIRSLLVRVGPAGSLAGLSVLRFVSGGRTASMAAAGIGGIRWPVFLWLSGAGS
+LAWSSSMVGLGWITGRATGLPWWASAMVGMVFGTLAGLMIAGIMAHRRRGRKG-------
+---
+>KD337_NAFOICDF_00057
+MT-----------------------------DVTALLEGLGPWFHPLTFLLVALDAPV--
+PPTPSEVLVIGSGSLAAAGRLGLATSVLTAWLGCWAGD-VGLYALFRHRLTSVLD--RWG
+WGRAVHAGIRRLMEKAGPASSLAGLFVLRFVSGGRTASMAAAGVAGVRWRPFLWLSGTGS
+LAWSVYMVGLGWITGSATGLPWWASAVVGVVLGTLLGAAVAAVIAWRRRGKEGA------
+---
+>KD337_NAFOICDF_00450
+MPVLTNIL-----------------------DAASILHSLGPWTLGGIGSMVFIESGVLF
+PFLPGDSLLVTAAALHVELGIALWAIILVAGLAAILGDQVGFYLGHRYGRRLFKDDARVL
+KTERLAQA-EAFFERRGPLALVLG----RFVPIVRTYVPVAAGTAGMPYRSFVGWNIGGA
+VAWVCSMVAVGALLGQIPGITKSIDGIMILIIVISVAPIAIQALRARRKARRDAVMTEGQ
+PVA
+>SA211_MHAAABBN_02297
+MT----------GG-----------------DPAALMDALGAWFHPLTALLVALDAPI--
+PPVPSEVVVIGSGALAAEGRVSPVAAVLAAWLGCWAGD-VGLYALFRHGLADRLD--RWA
+WWRRIHRGIRTLLVRVGPAGSLAGLSVLRFVSGGRTASMAAAGIGGIRWPVFLWLSGAGS
+LAWSGSMVGLGWLTGRATGLPWWASAVVGMVFGTLAGLMIAGIMAHRRRGRKG-------
+---
+>TT9_LFPAFLNI_00281
+MT----------GG-----------------DPAALMDALGVWFHPLTALLVALDAPI--
+PPVPSEVVVIGSGALAAEGRVSPVAAVLAAWLGCWAGD-VGLYALFRHGLADRLD--RWA
+WWRRIHRGIRSLLVRVGPAGSLAGLSVLRFVSGGRTASMAAAGIGGIRWPVFLWLSGAGS
+LAWSGSMVGLGWITGRATGLPWWASAVVGMVFGTLAGLMIAGIMAHRRRGRKG-------
+---
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000067.fa

@@ -0,0 +1,54 @@
+>AS2_ACLBLIBL_00120
+MTVQDRTPADAASPTEVFRAARDLLVECQTDYERARAEFEWPRFEHFNFGFDWFDRLAQDPARQDVPALIIAEDDGRSTE
+RTFAELSAASNRAANWLAEQGLRRGDRLILMLNNQVELWEFMLACIKLRVVMVPTTTQMTSADLEDRVSRADAAWAVAGA
+EDLAKFAGVGEGLRLVHVPGVFAEGEARRAPEVPGHTVLSYDDAAGASAELSPAEPTPADETLLFYFTSGTTSKPKLVEH
+THTSYPVGHLTTLYWIGLQPGDVHLNVASPGWAKHAWSNFFAPWIAEATIFVHNARKFDPAALMANMDRYGVTSFCAPPT
+VWRMLIKADLAQLKTPPTKTISAGEPLNAEVIDQVQKAWGATIRDGFGMTETTLQVANTPGQKVVIGSMGRPLPGMDVVL
+IDPLTGQEA---AEGEICLRLDPRPVGLLKSYFGNQEKTDEVFRDGVFHTGDIASRDENGVLTYVGRADDVFKSSDYKVS
+PFELESVLVKHPAVMEGAIVPTPDELRLAVPKAFVTLAPGHEPTAETAQSILQFTLTQLPPYKRIRRIEFLELPKTISGK
+IRRVELRKAEVERSETGTAPSGYGTEFREEDLDLTR----
+>KBS0714_MOLHKGIG_00250
+MTVQDPTAVAAPSPTEVFRVARDLLVECQTDDERARAEFEWPRFEHFNFGFDWFDRLAQDPARADVPALIIAEDDGRSTE
+RTFAELSAASNRVANWLSAQGLRRGDRLILMLNNQVELWEFMLACIKLRVVMVPTTTQMTSGDLEDRVTRAGAAWAVAGA
+EDLAKFAGVGEGLHLVHVPGVFAEGPARRAPEVAGHTVLSYDDAADAATELAPAEPTPADETLLFYFTSGTTSKPKLVEH
+THTSYPVGHLTTLYWIGLEPGDVHLNVASPGWAKHAWSNFFAPWIAEATIFVHNARKFDPAALMANMARYGVTSFCAPPT
+VWRMLIKADLAQLTTPPTKTISAGEPLNAEVIDQVHKAWGTTIRDGFGMTETTLQVANTPGQKVVIGSMGRPLPGMDVTL
+IDPLTGQEA---EEGEICLRLDPRPVGLLKSYYGNQEKTDEVFRDGVFHTGDIARRDENGVLTYVGRADDVFKSSDYKVS
+PFELESVLVKHPAVMEGAIVPTPDELRLAVPKAFVTLAPGHEPTAETARAILQFTLTQLPPYKRIRRIEFLELPKTISGK
+IRRVELRKAEVERAQTGAAPDGYGTEFREEDLDLHR----
+>KD337_NAFOICDF_00088
+--------MTTTSVTERLRAARDLLVECQEDYDRARAEFEWPRFEHFNFGFDWFDQLAARPDRADVPALIISDAGGGHLS
+RTYAELSAASNRAANWLRERGITPGDRVILMLDNQVELWELMLACIKLRVVMVPTTTQMTSADLADRVERAEARWVVASA
+ENLAKFDGVDSGLHLVHIPGVAAQGDARTAPVVAGHEVLSYDDAASASPELTPDSPTPADETLLLYFTSGTTSKPKLVEH
+THTSYPVGHLTTVYWIGLQPGDVHLNVASPGWAKHAWSNFFAPWIAEATIFVHNARKFDAAALMADMDEFGVTSLCAPPT
+VWRMLIKADLSLLKTPPVKTISAGEPLNAEVIDQVHRAWGTTIRDGFGMTETTLQIANTPGQKLVIGSMGRPLPGMDVVL
+IDPLTGEEA---AEGEICLRLDPRPVGLLKSYYGNEEKTAEVFRDGVFHSGDIASLDESGVLTYVGRADDVFKSSDYKIS
+PFELESVLVEHPAVMEAAIVPSPDEVRLAVPKAFVTLAPSYEPTAETARQILQHTLTQLPPYKRIRRIEFRELPKTISGK
+IRRVELRKAEAERAETGQAPEGYGIEHREEDLDLKR----
+>KD337_NAFOICDF_02472
+-----------MSVTARLRAARDLLVEHQQDYAGARAAFEWPRFETVNFGSDWFDAVAATPERADQDALVIVEEDGTVLR
+RSYARMSADTDRVAGWLQHLGVGRGDTVIVMLDNQVELWEAMLACMKIGAVVIPTTTQLVAADLQDRVDRAGARWAIANA
+GNLVKFADVVGDCTLIHVPGVYASEAEHALPEVPGHPVHSYGDAASFAGTWSLETPTSADDPLLLYFTSGTTSLPKLVEH
+TQASYTVGHLSTMYWVGLRPGDVHLNVASPGWGKHAWSSFFAPWLAEATIFVLNFRRFDAATLMRAMDEGGVTSFCAPPT
+VWRMLIKADLTQLQAPPRNAISAGEPLNAAVIDQVQRGWGVTVRDGFGQTESTLQIANTPGQRVVIGAMGRPLPGFDIEL
+RDPQTGDRVDGEGEGEICVGLDPRPVGLFQRYHGDPEKTAEAFRDGVYHTGDIARRDEHGIYTYVGRADDLFKSSDYKLS
+PFELESVLMTHPAVLEAAVVPAPDELRLSVPKAFVTLAAGHEPGEEAARAILQHVTDRVPAYKRIRRIEFRPLPKTVSGK
+VRRVELR-AEEEQRRAGVA--GLGVEHREEDLGIRRQRRA
+>SA211_MHAAABBN_02262
+MTVQDPTAVAAPSPTEVFRAARDLLVECQTDYERARAEFEWPRFEHFNFGFDWFDRLAQDPARADVPALIIAEDDGRSTE
+RTFAELSAASSRVANWLSAQGLRRGDRLILMLNNQVELWEFMLACIKLRVVMVPTTTQMTSGDLEDRVTRAGAAWAVAGA
+EDLAKFAGVGEDLHLVHVPGVFAEGPARRAPEVAGHTVLSYDDADDAATELTPAEPTPADETLLFYFTSGTTSKPKLVEH
+THTSYPVGHLTTLYWIGLEPGGVHLNVASPGWAKHAWSNFFAPWIAEATIFVHNARKFDPAALMANMERYGVTSFCAPPT
+VWRMLIKADLAQLTTPPTKTISAGEPLNAEVIDQVHKAWGTTIRDGFGMTETTLQIANTPGQKVVIGSMGRPLPGMDVTL
+LDPLTGQEA---EEGEICLRLDPRPVGLLKSYYGNQEKTDEVFRDGVFHTGDIARRDENGVLTYVGRADDVFKSSDYKVS
+PFELESVLVKHPAVMEGAIVPTPDELRLAVPKAFVTLAPGHEPTAETARAILQFTLTQLPPYKRIRRIEFLELPKTISGK
+IRRVELRKAEVERAQTGAAPDGYGTEFREEDLDLQR----
+>TT9_LFPAFLNI_00250
+MTVQDPTAVAAPSPTEVFRAARDLLVECQTDDERARAEFEWPRFEHFNFGFDWFDRLAQDPARADVPALIIAEDDGRSTE
+RTFAELSAASNRVANWLSAQGLRRGDRLILMLNNQVELWEFMLACIKLRVVMVPTTTQMTSGDLEDRVTRAGAAWAVAGA
+EDLAKFAGVGEDLHLVHVPGVFAEGPARRAPEVAGHTVLSYDDADDAATELTPAEPTPADETLLFYFTSGTTSKPKLVEH
+THTSYPVGHLTTLYWIGLEPGDVHLNVASPGWAKHAWSNFFAPWIAEATIFVHNARKFDPAALMANMERYGVTSFCAPPT
+VWRMLIKADLAQLTTPPTKTISAGEPLNAEVIDQVHKAWGTTIRDGFGMTETTLQIANTPGQKVVIGSMGRPLPGMDVTL
+LDPLTGQEA---EEGEICLRLDPRPVGLLKSYYGNQEKTDEVFRDGVFHTGDIARRDENGVLTYVGRADDVFKSSDYKVS
+PFELESVLVKHPAVMEGAIVPTPDELRLAVPKAFVTLAPGHEPTAETARAILQFTLTQLPPYKRIRRIEFLELPKTISGK
+IRRVELRKAEVERAQTGAAPDGCGTEFREEDLDLQR----

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000068.fa

@@ -0,0 +1,55 @@
+>AS2_ACLBLIBL_00129
+MAEFSAAPTA-HPAESDTHVSPAQRRKAFVGAIAGHLIEWYDYGVYG-FLAVYVAANFFK
+SENPMVGILAAFAVFALSFFVRPLGGLFFGPLADKIGRRKTLMIVLGLMCGATAVIGMLP
+TYATIGVFAPILLVLMRLVQGFSAGGEVSTISAFVAEYAVKGRRGFATSFLMVTAASGLL
+LGGVVANGLGAIIGTEAMAEWGWRLPFLLAGVLGVVAVFIRMKLEDSPEFRRLHSEGKTS
+KTPLRETLRYQRQLFLMGALITLLGSTF-YLVLTYLTTY-MRTILELTPGAIFWLVLLTG
+AAAAAFMPVGGAISDRMGDRRPMLAIGAVLVAGAVVWFFLTAPGTDGGLPL-VPSLLALG
+ITTGLYCGVPYATMTELMPAHVRSTGIALGYNVPVAVFGGSAPFIASWLINETGDVASPM
+YFFLLTAAIALVGVAMLRPTDL----LGHEDVPVTGSIDAVGGKVTRTVAPRPKADAL
+>AS2_ACLBLIBL_00826
+MSHTTVAHGAEHPARTR---DRAEERKVLAGTLVGTTIEWYDFFIYAQAAALVFAPLFFA
+PMGEQGAQIASWASLGISFLVRPLGAIVAGHMGDRFGRKLVLSLTLIGMGAATVLIGLLP
+TYASIGIWAPILLVVFRLLQGFSAGGEWGGAALLSVEHAPRGKRGLFGSAPQIGVPLGML
+LATGVLFAVRASMTNEQFLAWGWRIPFLISVILIFIGYIIRKAVEESPVFKEMQQLKKDE
+SAPLGELFRNHTKEVVLAALIFAANNAVGYLVIAWFSKY-GQKNLGMAPNDTLIAALVGG
+FGWFIFTLFGGWISDKIGRKTAFVAGYALIIAWAFPMFQMMNTAS---LPMFAAALFILS
+IGLGPSYGPQSAMYAEMFPARVRFSGVSIGYAIGAIIGGAFAPLIADLLLNDGGWVPVA-
+WYMIIISAVSLIAVLFV-PKGIQDRNLHDEGVVVAET---------GTREPVA-----
+>KBS0714_MOLHKGIG_02014
+MSHTVASPAA--PVPAR---DRREERKVIAGTVVGTTIEWYDFFIFAQATALVFAALFFQ
+PMGENGSQIAAWVTLGISFLVRPLGAIVAGHLGDRFGRKLVLSLTLIGMGLATTLIGLLP
+TYAQIGVWAPILLVALRLLQGLSAGGEWGGAALLSVEHAPHGKRGLFGSAPQIGVPLGMI
+LATGVLFIVRSTMSEEQFLTWGWRIPFLISVILIVVGYLIRKAVEESPVFKEMQQLKVDE
+SAPLGELFRHHTKEVILAAVIFAANNGVGYLLIAWFSKYGGPKGLGMTSSEVLIASLVGG
+VGWFIFTLLGGWVSDKIGRKLTFVFGYGFLIVWAFPLFGLLNTAS---LPLFSLGLFVLT
+LGLGPSYGPQSAMYAEMFPARVRFSGVSIGYALGTIIGGAFAPLLADQLVKT-GWENVA-
+WYIIVISAISLIAVLFV-PKGIQDRELHDEQVVATRS---------NPVVPT------
+>KD337_NAFOICDF_00765
+MSHTVASPAV---AAAR---DPREERKVLAGTLVGTTIEWYDFFIFAQATALVFATLFFQ
+PMGESGAQIAAWVTLGISFLVRPLGAIIAGHLGDKFGRKLVLSLTLIGMGAATTLIGLLP
+TYAQIGVWAPILLVLLRLLQGFSAGGEWGGAALLAVEHAPHGKRGLFGSAPQIGVPLGMI
+LATGVLFLVRSTMSEEQFLTWGWRIPFLVSVLLIVVGYFIRKAVEESPVFKEMQQLKVDE
+SAPLGELFRHHTKEVILAAVIFAANNGVGYLLIAWFSKYGGPKGLGMTSSEVLIASLVGG
+VGWFIFTLLGGWISDKIGRKTTFVIGYAILIAWAFPMFQLLNTAS---LLLFSLALFVLT
+MGLGPSYGPQSAMYAEMFPARVRFSGVSIGYAIGTIIGGAFAPLIADELVKS-GWPSVA-
+WYIIGISAISLIAVLFV-PKGIQDRELHDEEVVATRS---------NPVVPA------
+>SA211_MHAAABBN_01724
+MSHTVASPAA--PAPAR---DRREERKVIAGTVVGTTIEWYDFFIFAQATALVFAALFFQ
+PMGESGSQIAAWATLGISFLIRPLGAIVAGHLGDRFGRKFVLSLTLIGMGLATTLIGLLP
+TYAQIGVWAPILLVALRLLQGLSAGGEWGGAALLSVEHAPHGKRGLFGSAPQIGVPLGMI
+LATGVLFIVRSTMSEEQFLTWGWRIPFLISVVLIVVGYLIRKAVEESPVFKEMQQLKVDE
+SAPLGELFRHHTKEVILAAVIFAANNGVGYLLIAWFSKYGGPKGLGMTSSEVLIASLVGG
+VGWFIFTLLGGWVSDKIGRKLTFILGYGFLIIWAFPLFGLLNTAS---LPLFSLGLFVLT
+LGLGPSYGPQSAMYAEMFPARVRFSGVSIGYALGTIIGGAFAPLLADQLVKT-GWENVA-
+WYIIVISAVSLIAVLFV-PKGIQDRELHDEQVVATRS---------NPVVPA------
+>TT9_LFPAFLNI_01952
+MSHTVASPAA--PVPAR---DRREERKVIAGTVVGTTIEWYDFFIFAQATALVFAALFFQ
+PMGESGSQIAAWVTLGISFLVRPLGAIIAGHLGDRFGRKLVLSLTLIGMGLATTLIGLLP
+TYAQIGVWAPILLVALRLLQGLSAGGEWGGAALLSVEHAPHGKRGLFGSAPQIGVPLGMI
+LATGVLFIVRSTMSEEQFLTWGWRIPFLISVALIVVGYLIRKAVEESPVFKEMQQLKVDE
+SAPLGELFRNHTKEVILAAVIFAANNGVGYLLIAWFSKYGGPKGLGMTSSEVLIASLIGG
+VGWFIFTLLGGWISDKIGRKLTFVLGYGFLIVWAFPLFGLLNTAS---LPLFSLGLFVLT
+LGLGPSYGPQSAMYAEMFPARVRFSGVSIGYALGTIIGGAFAPLLADQLVKT-GWENVA-
+WYIIVISAISLIAVLFV-PKGIQDRELHDEQVVATRS---------NPVVPA------
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000073.fa

@@ -0,0 +1,19 @@
+>AS2_ACLBLIBL_00167
+M---ENSLPAERARLGWSQQRLADELGVSRQTVISLEKGRHDPSLALAFRLAETFGTRIE
+DLFSP--DPPA------
+>AS2_ACLBLIBL_02206
+----------------MSIDRLAEAAAIHRRTIIQIEAGRTAPRVTTLYAIAEATGTPLR
+DLLAP--LDEALERGTR
+>KBS0714_MOLHKGIG_00216
+M---ENTIPDERARLGWSQQRLADELGVSRQTVISLEKGRYDPSLPLAFRLAAVFGRRIE
+DLFTP--DGNAG-----
+>KD337_NAFOICDF_00321
+MARLARAFKVHKANSGMTYDQLAEATGLARQTLLNLAAGRTYGDLRTWLILAKVWGVTLD
+DLTAAAWRGHAGG----
+>SA211_MHAAABBN_02209
+M---ENTIPDERARLGWSQQRLADELGVSRQTVISLEKGRYDPSLPLAFRLAAVFGRRIE
+DLFTP--DGNAG-----
+>TT9_LFPAFLNI_00216
+M---ENTIPDERARLGWSQQRLADELGVSRQTVISLEKGRYDPSLPLAFRLAAVFGRRIE
+DLFTP--DGNAG-----
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000075.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00185
+MTSRS----------PLSSRSPLSPRPSRRALLAGL-AGVGSAALLTGCGLRTGTAAGGG
+GASRTITLCATEDAPYQEPVR-IAERLLAER-GWELKTTFVTDIIQPNIAVDRGEFDANF
+FQHIAYLKQFNADNGTSVVPAFNVYTSPAGLFSTRYSSLEELPDGARISVPVDPSNNGRA
+LRLLAQAGRIT-VREGVSVIRLSQHDITANPHGYEFVEVDQQSLALTIED--ADAGFLFA
+RQSAKIGLPISESLLFE--TAEDAVPFRVVVATREGFRDTEAGRALREAFQSEEVRRWYA
+DYLDGALGTEAWG----DDP----QEAIAALEI
+>AS2_ACLBLIBL_01852
+M-----------------ALSPLSRRTALGAGTAAL-ALVLSACGAGGSDTAASSAPTPD
+PANPVVVKVGANPVPHAQILEYVDENLAKEA-GIDLEIQEFDDYQMPNTALDEGKIDANY
+YMHEPFFNKQVEERGLKMEHGKGVHIEPYAAFSKKFDSVDQVPEGATVAITNDPGNQPRA
+LKMLEQAGLLKDVKDDSAALTLTPEQ---NPKGLTFEENQPEILVQILDDPAVDLAIING
+NYFIQAGMTLEDAVVVE--EISGENPYANFVAWREG-EKTPGVEKLDELLHSPKVKQYIE
+QTWPGGDVTPAF---------------------
+>KBS0714_MOLHKGIG_01028
+----------------MTTPSNISRRSFAGLSLAAVGAFALTAC------NSQAEEKSDD
+GAQTVRIGVVSENESHRALVK-----LAKEKHGIDVEIRNFTEYTQPNPALDNGDIDMNW
+FQHIAYLADYNQASGKDLTMIGTTEIIPLPLYSKKYTDVSEFKKGDTVAIPNDTVNQARA
+INVLVAAGLLKLSNE---TIRPEVRDIDEAASTVTVQPVAAQQTVNALES--VQGAVINN
+TFSADAGIDTNTALFKDDPEDDSAKPYVNGFAVRREDRDNETYKKIAALYHEQPVLDESA
+KLSSGTSVPVQLDTAQIDETLKQYQDAIAKQGA
+>KD337_NAFOICDF_01744
+MPTRAGDVAPSSKENPMTTPSNISRRSFAGLSLAAVGALALTAC------NSQAEKKGDD
+GAQTVRIGVVSENETHRALVK-----LAKEKHGIDVEIRNFTEYTQPNPALDNGDIDMNW
+FQHIAYLADYNQASGKDLTLIGTTEIIPLPLYSKKYKDVSEFQKGDTVAIPNDTVNQARA
+INVLVAAGLLKLSNE---TIRPEPKDIDEAASTVKVQTVAAQQTVNALES--VQGSVINN
+TFSADAGIDTNTALFKDDPKADSAKPFVNGFAVRRADRENETYKKIAALYHEQAVLDESA
+KLSSGTSVPVQLDAAQIDETLKQYQDAIAKQGA
+>SA211_MHAAABBN_00743
+----------------MTTPSNISRRSFAGLSLAAVGAFALTAC------NSQAEEKSDD
+GAQTVRIGVVSENESHRALVK-----LAKEKHGIDVEIRNFTEYTQPNPALDNGDIDMNW
+FQHIAYLADYNQASGKDLTMIGTTEIIPLPLYSKKYTDVSEFKKGDTVAIPNDTVNQARA
+INVLVAAGLLKLSNE---TIRPEVRDIDEAASTVTVQPVAAQQTVNALES--VQGAVINN
+TFSADAGIDTNTALFKDDPEDDSAKPYVNGFAVRREDRDNETYKKIAALYHEQPVLDESA
+KLSSGTSVPVQLDTAQIDETLKQYQDAIAKQGA
+>TT9_LFPAFLNI_00972
+----------------MTTPSNISRRSFAGLSLAAVGAFALTAC------NSQAEEKSDD
+GAQTVRIGVVSENESHRALVK-----LAKEKHGIDVEIRNFTEYTQPNPALDNGDIDMNW
+FQHIAYLADYNQASGKDLTMIGTTEIIPLPLYSKKYTDVSEFKKGDTVAIPNDTVNQARA
+INVLVAAGLLKLSNE---TIRPEVRDIDEAASTVTVQPVAAQQTVNALES--VQGAVINN
+TFSADAGIDTNTALFKDDPEDDSAKPYVNGFAVRREDRDNETYKKIAALYHEQPVLDESA
+KLSSGTSVPVQLDTAQIDETLKQYQDAIAKQGA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000078.fa

@@ -0,0 +1,54 @@
+>AS2_ACLBLIBL_00193
+--------MAPARLDPADR-TQLRRHPVSLRRIARLFAPHRSTIALVVVLISAASVINLAQPFLVRAVIDDALPNQDVPL
+LIRLTAAMVGVAALTAVIGVVQTWRATAMGQHVMHSLRVRLFTHLQAQPLAFFTRTRGGEVQSRLTHDIAGMQSVVTSTA
+TGVASNLTAVVATAAAMVALSPRLSLISLVVLPPAVWLSRRVAQLRRAVTDKRQAALAQMHTQVEEGLSVSGARLSKTLG
+TTGHDAERFTGRSHELIGLELRSQLAGRWRMATMSIVFAAIPAVIYLAAGLPPTSGGMTIGTLVAFTALQGQVFRPVMGL
+LNIGVQWVTALAFFSRIFEYLDLDPAIKPPADPVPVDPARVRGTVRFEGVDFAYDD-------------------GAPAL
+SGIELTVPAGTTTAVVGSTGSGKSTLASLVPRLHDPTAGRVSIDGIDVARLDPADLAAIVGVVSQETYLIHASVRDNLRL
+ADPEATDERLWAALETASLARTVAALPEGLDTLVGARGHRFSGGEQQRLAIARTVLRNPPVLVLDEATSALDNTTEARVQ
+AALDELAEHRTTLLVAHRLSTVMGADQVAVLEGGRIVELGAPTELLRAGGPFAALAARGDAVVPGAAPAEPALAR
+>AS2_ACLBLIBL_02595
+--MESAARVSMMRMTHGQNGATQPLAKGTVRRTIAFADRYRARLIVFVLASIVGAVLGVASPVLAGDVVNAITGGDDGGL
+VVRLALLIALVAVLDAALSVFTKWLSSGLGERVIFDLRTQVFDHVQRMPVAFFQRTRTGALVSRLNNDVIGAQSAISRTL
+SGVVANVVSVALTLGVMVATSWQVTVLSLLLLPLFLIPARAVGSKLAGLSRERAGHNAAMGDQMTERFSAPGATLIKLFG
+RPAAESAEFARRADRVRATGVDISVRQAVFTTLLTLVSALALAAVYGVGGLQAIAGTLDAGDVVTLALLLTRLYAPLTAL
+ANARVEIMSALVSFERVFEVLDLQPLIIEPARPAALPAGPL--SVRLRDVRFSYPTAQEVSLASLEEVAVLDTRGGEEVL
+HGIDVAVPAGSTVALVGSSGAGKSTIASLVTRLHDVSSGAVELGGVDVRDLSFADLQEAVGMVTQDGHLFHDTVRGNLLL
+ARPDATEEQLWDAVERARLRPVIEALPDRLDTVVGERGYRLSGGERQRMTIARLLLAAPRVVVLDEATAALDSTNERAIQ
+EALGEALTGRTAIVIAHRLSTVRSADEILVVEAGRIVERGGHAELLAAGGRYAELYT-----------TQFADAE
+>KBS0714_MOLHKGIG_00366
+MSMESAARMSMMRMTRGQSDAQQSLARGTVRRTIAFAGRYRTRLIVFVAASIVGAVLGVASPVLAGDVVNAITGGADRGL
+VVRLALLIALVAVLDAALSVFTKWLSSGLGERVIYDLRTAVFDHVQRMPVAFFQRTRTGALVSRLNNDVIGAQSAISRTL
+SGVVANVVSVALTLGVMVATSWQVTVLSLVMLPLFLVPARAVGSKLADLSRERAGHNAAMGDQMTERFSAPGATLIKLFG
+RPAAESAEFARRADRVRATGVDISVRQAVFTTLLTLVSALALAAVYGVGGLQAIAGTLDAGDVVTLALLLTRLYAPLTAL
+ANARVEIMSALVSFERVFEVLDLEPLITEPARPAALPEGPL--SVRLRDVRFAYPTAEQVSLASLEEVAVLDTRGGEEVL
+HGIDVAVPAGATVALVGSSGAGKSTIASLVTRLHDVTSGAVEIGGVDVRDLAFADLQRAVGMVTQDGHLFHETVRANLTL
+ARPDATDEELWDAVERARLRPVVEALPDGLDTVVGERGYRLSGGERQRMTIARLLLAAPRVVVLDEATAALDSTNERAIQ
+EALGEALAGRTAIVIAHRLSTVRSADEILVVEAGRIVERGTHAALLAADGRYAELYT-----------TQFADAE
+>KD337_NAFOICDF_02454
+MSMESVARVSMMRLQRGGT-APQPLAPGTVRRTVAFAAQYRARLIVFVAASVVSAVLGVASPVLAGDVVNAITGGTDRAL
+VVRLALLIAAVALADAALSVFTKWLSSGLGERVIYDLRTRVFDHVQRMPVAFFQRTRTGALVSRLNNDVIGAQSAISRTL
+SGVVANAVSLALTLAVMLATSWQITLLSLVLLPLFLVPARMVGGRLAALSRERAGHNAAMGDQMTERFSAPGATLIKLFG
+EPGAESAEFARRADRVRATGVDISVRQAVFTTLLTLVSALALAAVYGVGGLQAIAGTLDAGDVVTMALLLTRLYAPLTSL
+ANARIEIMSALVSFERVFEVLDLEPLITEPAHPVPVPDGPL--AVTLDDVHFAYPSAQEVSLASLEEVAVLDTRGGEEVL
+HGVDVDVPAGRTVALVGSSGAGKSTIASLVTRLYDVTSGAVRLGGVDVRDMAFADLHRAVGMVTQDGHLFHDTVRGNLLL
+ARPAATDAEVWDAVDRARLRGVVESLPDGLDTVVGERGYRLSGGERQRMTIARLLLAAPRVVVLDEATAALDSTNERAIQ
+EALREALAGRTAVVIAHRLSTVRDADEILVVEGGRIVERGPHAALLAAGGRYAELYT-----------TQFAEGA
+>SA211_MHAAABBN_00082
+MSMESAARMSMMRMTRGQSDAQQSLARGTVRRTIAFAGRYRTRLIVFVAASIVGAVLGVASPVLAGDVVNAITGGADRGL
+VVRLALLIALVAVLDAALSVFTKWLSAGLGEQVIYDLRTAVFDHVQRMPVAFFQRTRTGALVSRLNNDVIGAQSAISRTL
+SGVVANVVSVALTLGVMVATSWQVTVLSLVMLPLFLLPARAVGSKLAGLSRERAGHNAAMGDQMTERFSAPGATLIKLFG
+RPAAESAEFARRADRVRATGVDISVRQAVFTTLLTLVSALALAAVYGVGGLQAIAGTLDAGDVVTLALLLTRLYAPLTAL
+ANARVEIMSALVSFERVFEVLDLEPLITEPARPAALPEGPL--SVRLRDVRFAYPTAEQVSLASLEEVAVLDTRGGEEVL
+HGIDVAVPAGATVALVGSSGAGKSTIASLVTRLHDVTSGAVEIGGVDVRDLAFADLQRAVGMVTQDGHLFHETVRANLTL
+ARPDATDEQLWDAVERARLRPVVEALPDGLDTVVGERGYRLSGGERQRMTIARLLLAAPRVVVLDEATAALDSTNERAIQ
+EALGEALAGRTAIVIAHRLSTVRSADEILVVEAGRIVERGTHAALLAAGGRYAELYT-----------TQFADAE
+>TT9_LFPAFLNI_00373
+MSMESAARMSMMRMTRGQSDAQQSLARGTVRRTIAFAGRYRTRLIVFVAASIVGAVLGVASPVLAGDVVNAITGGADRGL
+VVRLALLIALVAVLDAALSVFTKWLSAGLGERVIYDLRTAVFDHVQRMPVAFFQRTRTGALVSRLNNDVIGAQSAISRTL
+SGVVANVVSVALTLGVMVATSWQVTVLSLVMLPLFLLPARAVGSKLAGLSRERAGHNAAMGDQMTERFSAPGATLIKLFG
+RPAAESAEFARRADRVRATGVDISVRQAVFTTLLTLVSALALAAVYGVGGLQAIAGTLDAGDVVTLALLLTRLYAPLTAL
+ANARVEIMSALVSFERVFEVLDLEPLITEPARPAALPEGPL--SVRLRDVRFAYPTAEQVSLASLEEVAVLDTRGGEEVL
+HGIDVAVPAGATVALVGSSGAGKSTIASLVTRLHDVTSGAVEIGDVDVRDLAFADLQRAVGMVTQDGHLFHETVRANLTL
+ARPDATDEQLWDAVERARLRPVVEALPDGLDTVVGERGYRLSGGERQRMTIARLLLAAPRVVVLDEATAALDSTNERAIQ
+EALGEALAGRTAIVIAHRLSTVRSADEILVVEAGRIVERGTHAALLAAGGRYAELYT-----------TQFADAE

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000084.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00346
+M-------------------TRRPPSS-------RHRPAPAYLADSAPGREGWPLGFAHR
+GADVGRENSLAAFQAAHDAGFAYLELDVRTTSDGELVVFHDETLERVTTGRGRLQEHTWH
+GLTEVHVGGEPLLRFADLLAALPEARLNVDLKDRAAAPAMARLLAEHEAWERVLVASFHD
+SRRRAFRRALAALGHEDRAFGPGRVATSGGVAAIAALVALGPVGLTRWLARHALDIDCVQ
+VPVRHGRVRVVTADFVRRCHAAGLPVHVWVIDEPDEMHRLLDLGVDGIMTDRADVLADVF
+TTRGIWPQR
+>KBS0714_MOLHKGIG_00053
+MRADLTLIPTSRVPGCGSGHPTARPRYGDPVRPTSPRPAPAYLTDSVPARRGHPLGFAHR
+GAAVDRENSLAAFVDAHAAGFTYLELDVRTTADGELLVFHDDTLDRVSTGRGRLRDHTWE
+RLADVTVGGEPLLRFTELLTALPEARLNVDLKDRASAPALARILAEHGAWDRVLVASFHD
+SRRRLFRRALARLGHPERAYGPERVATSGGAAAIAALVTLGPLGLTRWLRRCALDVDCVQ
+VPVRHGRVPVATADFVRRCHAAGLPVHVWVVDEPAEIERLLDLGVDGVMTDRADVLAEVY
+ARRGFWPQR
+>KD337_NAFOICDF_00284
+MEDSS---------GSLAASSIRPPSSGPSSTPPPARPAPAYLADSAPGREGWPLGFAHR
+GADVGRENSLAAFQAAHDAGFAYLELDVRTTSDGELVVFHDETLERVTTGRGRLQEHTWH
+GLTEVHVGGEPLLRFADLLAALPEARLNVDLKDRAAAPAMARLLAEHEAWERVLVASFHD
+SRRRAFRRAPAALGHEDRAFGPGRVATPGGAAAIAALVALGPVGLTRWLARHALDVDCVQ
+VPVRHGRVRVVTADFVRRCHAAGLPVHVWVIDEPDEMHRLLALGVDGIMTDRADVLADVF
+TTRGIWPQH
+>KD337_NAFOICDF_00293
+MRIRA------------------------ATTSPALRPAPAYLAASAPARRGWAVGFAHR
+GAGNERENTLAAFTAAWEAGFRYLELDVRTTSDGVLVVFHDATLDRVSTAAGDFSALAWA
+DFAAHTVGGEPFLRFADLLAALPEARFNVDLKDADAAPAMAALLAEHDAWDRVLVASFHD
+SRRRAFRRAVAALGHPERAHGPERVATSGGAAAIAALVLLGPLGLTGWLRRHALDIDCVQ
+VPLHQGRVPVVTADFVRRCHAAGLPVHVWVVDDPAEMERLLDLGVDGIMTDRADVLAEVF
+TRRGIWPQR
+>SA211_MHAAABBN_02066
+------------------------------MRPTSPRPAPAYLTDSVPARRGHPLGFAHR
+GAAVDRENSLAAFADAHAAGFTYLELDVRTTADGELVVFHDETLDRVSTGRGRLRDHTWE
+RLADVTVGGEPLLRFTELLTALPEARLNVDLKDRASAPALARILAEHGAWDRVLVASFHD
+SRRRLFRRALARLGHPERAYGPERVATSGGAAAIAALVTLGPLGLTRWLRRCALDVDCVQ
+VPVRHGRVPVATADFVRRCHAAGLPVHVWVVDEPAEIERLLDLGVDGVMTDRADVLAEVY
+DRRGFWPQR
+>TT9_LFPAFLNI_00048
+MRADLTLIPTSRVPGCGSGHSAVRPRYGDPVRPTSPRPAPAYLTDSVPARRGHPLGFAHR
+GAAVDRENSLAAFVDAHAAGFTYLELDVRTTADGELVVFHDETLDRVSTGRGRLRDHTWE
+RLADVTVGGEPLLRFTELLTALPEARLNVDLKDRASAPALARILAEHGAWDRVLVASFHD
+SQRRLFRRALARLGHPERAYGPERVATSGGAAAIAALVTLGPLGLTRWLRRYALDVDCVQ
+VPVRHGRVPVATADFVRRCHAAGLPVHVWVVDEPAEIERLLDLGVDGIMTDRADVLAEVY
+ARRGLWPQR
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000086.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00370
+MERGPVVGLLDNLERGLERAVRSAFSAGGPRAVKPVEIASALRQAMDDESFALSEGHTVA
+PNSYVVHFSPADFDRARSWGSTLASELCDEVIRHADSQGYALPGTVRVAFHPDTDVRAGD
+LRVVTGLDDGSLPAPAPHDDGASPATAHGPGATATAPDRLVEDL----------------
+------------------------------------------------------------
+------------------------------------------------------------
+-----------------LGGRT-P
+>AS2_ACLBLIBL_00371
+------------------------------------------------------------
+------------------------------------------------------------
+------------------------------------------------------------
+----------------------------------MGRPVT-EPSGPALELDGRMLPLDGD
+DLILGRSAERADLVIPDSSVSREHLRLLTVGSTVTLLDLGSRNGVLVNGRRVDGSVTLRD
+GDVVTVGQTELLFFSG-TGGR--A
+>KBS0714_MOLHKGIG_00025
+MERGPVVGLLDNLERGLERAVRSAFSAGGPRAVKPVEIASALRQAMDDESIALSEGHTVA
+PNSYVVHFSPADFERARSWGSTLASELCDEVIRHADSQGYALPGTVRVAFHPDADVRGGD
+LRVVTRLDDGSLTAPAPHDDGASPATAHGPGATAPAPDRLVEDPPAAAPRE---PSPAPR
+VGPRPAPRRA------AAPAAPAAPSHADQPTVVMGRPVT-EPAGPALELDGRMLPLDGD
+DLILGRSAERADLVIPDSSVSREHLRLLTVGSTVTLLDLGSRNGVLVNGRRVDGSVTLRD
+GDVVTVGQTELLFFGG-TGGR--A
+>KD337_NAFOICDF_00353
+------MGLLDNLERGLEKAVRSAFSAGGARAVQPVEIASALRHAMDDESFALSEGHTVA
+PNDFTVHFAPADFDRARTWGSTLAGELCDEVIRHAQSQGYTLPGSVRVAFHEDAQVHAGQ
+VEVDARIDDGSSPVPSPPAATSAPA----PAAARTADDR--GPRPSRAPRHGATAAPAPR
+RDPSPAPRPAPTPA--RSESARRAPAD-EQATVVMPRRTSPAPAVPWLEADGVRHPLTHE
+DMVLGRSSERADVVVPDSSVSRQHARLVRVGRSVTLIDLGSRNGVTVNGRRVDGSTVLRE
+GDRITVGQTDLVFHIDPADGRPRA
+>SA211_MHAAABBN_02043
+MERGPVVGLLDNLERGLERVVRSAFSAGGPRAVKPVEIASALRQAMDDESLALSEGHTVA
+PNSYVVHFSPADFERARSWGSTLASELCDEVIRHADSQGYALPGTVRVAFHPDADVRAGD
+LRVVTRLDDGSLTAPAPHDDGASPATAHGPGASAAAPDRLVEDLPAAAPRE---PSPAPR
+VGPRPAPRRAAAPAAPAAPAAPAAPAHADQPTVVMGRPVT-GPAGPALELDGRMLPLDGD
+DLILGRSAERADLVIPDSSVSREHLRLLTVGSTVTLLDLGSRNGVLVNGRRVDGSVTLRD
+GDVVTVGQTELLFFGG-TGGR--A
+>TT9_LFPAFLNI_00025
+MERGPVVGLLDNLERGLERVVRSAFSAGGPRAVKPVEIASALRQAMDDESFALSEGHTVA
+PNSYVVHFSPADFERARSWGSTLASELCDEVIRHADSQGYALPGTVRVAFHPDADVRAGD
+LRVVTRLDDGSLTAPAPHDDGASPATAHGPGASAAAPDRLVEDLPAAAPRK---PSPAPR
+VGPRPAPRRA------AAPTAPAAPAHADQPTVVMGRPVA-EPAGPALELDGRMLPLDGD
+DLILGRSAERADLVIPDSSVSREHLRLLTVGSTVTLLDLGSRNGVLVNGRRVDGSVTLRD
+GDVVTVGQTELLFFGG-TGGR--A
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000088.fa

@@ -0,0 +1,37 @@
+>AS2_ACLBLIBL_00399
+--MGEYFAQTVQSGALLLAIPLAAIAGIVSFLSPCILPLVPGYLGYVSGLSD--PTRPDN
+RRRVMTGVGLFILGFAAVFTLYGAAFGLIGGWLLRWQDLLIRILGVLVILMGLALMGMFT
+FLQRTTTPSFTPRTGLAGAPLLGLGFGLGWTPCMGPTLSAVLALSTTTGGAWRGALLGFV
+YCLGLGIPFVLVARGLGWVSTALGFVRRHMRAFNIAGGTLLVLVGVLMATGIWTVWIYQL
+QNLAGTFTTPV
+>AS2_ACLBLIBL_02642
+MDV----QQLVADGQLLVASVIALAAGLLSFLSPCVLPLVPGYLAYVSASAGAAPGEKPA
+RGRLVLGSLLFVAGFTAVLVALLAAAGTVGVWLLEWEQLITRVMGAVVILMGLVFIGAFG
+FMQRTTKLRIKPRTGLLGAPLLGVVFAIGWTPCLGPTLAAIMTLSVQQGSVARSVVLALA
+YCIGLGLPFVLAAFGFGWMTQTMTFFKRHIRTVNLIGGVLLILIGLLMVTGLWSQMMYAL
+QAVIGGYVTPL
+>KBS0714_MOLHKGIG_00610
+MSLGGFFAEMVQSGALLVAMPLAAIAGLVSFLSPCILPLVPGYLGYVSGLAD--PRRADN
+RRRVMTGVGLFILGFAAVFTFYGAAFGVIGGWLLQWQDALIRALGVFVVLMGLVLIGWLP
+FLQNTRRMSFQPKTGIVGAPLLGVVFGLGWTPCMGPTLSAVLALSTTTGDPWRGALLGFL
+YCLGLGIPFVLVAMGLDWVTRTLGFVRRHIRAFNIIGGILLVLVGVLMVTGIWTLWIYQL
+QNLAGTFTTPV
+>KD337_NAFOICDF_02202
+--MGEYFAQTVQSGALLLAIPLAAIAGIVSFLSPCILPLVPGYLGYVSGLSD--PTRPDN
+RRRVMTGVGLFILGFAAVFTLYGAAFGLIGGWLLRWQDLLIRILGVLVILMGLALMGMLT
+FLQRTTTPSFTPRTGLAGAPLLGLGFGLGWTPCMGPTLSAVLALSTTTGGAWRGALLGFV
+YCLGLGIPFVLVARGLGWVSTALGFVRRHMRAFNIAGGTLLVLVGVLMATGIWTAWIYQL
+QNLAGTFTTPV
+>SA211_MHAAABBN_01770
+MSLGGFFAEMVQSGALLVAMPLAVVAGLVSFLSPCILPLVPGYLGYVSGLAD--PRRADN
+RRRVMTGVGLFIMGFAAVFTLYGAAFGVIGGWLLQWQDALIRALGVFVILMGLVLIGWLP
+FLQNTRRMSFQPRTGIAGAPLLGVVFGLGWTPCMGPTLSAVLALSTTTGDPWRGALLGFL
+YCLGLGIPFVLVAMGLDWVTRTLGFVRRHIRAFNIIGGVLLVLVGVLMVTGIWTLWIYQL
+QNLAGTFTTPV
+>TT9_LFPAFLNI_02004
+MSIGNYFAETVNSGALLIAAPLAMIAGIVSFLSPCILPLVPGYLGYVSGLSN--PTHPDN
+RRRVLTGVGLFILGFAAVFTLYGAAFGTIGHWLVRWQDPMIRVLGVLVIVMGLVMVGKFS
+LFQRTLKPTLAPRTGLAGAPLLGVVFGLGWTPCMGPTLSAVLALSTTTGDPWRGALLGFL
+YCLGLGIPFLLAAAGINWVTTALSYIRRNIRVFNIIGGCLLVLVGVLMVSGLWMLWMYQL
+QNLAGTFTTPV
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000091.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00434
+MA-----PTAQDQSVHNVVIVGSGPAGYTAAIYTARAHLQPVLVAGSVTAGGELMNTTEV
+ENFPGFPEGIQGPELMANLEAQARRFDTEVLYEDVVKADLTASPKVLTLGDGTELRAHAV
+ILTTGSAYRKLGVEGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFA
+SKVTVLVRKDELRASKVMARRALENEKIEFRWNTEVAEVIGGEKVQTLRLRDTQTGEEST
+LDVTGLFVAIGQDPRTDLVQGQLELTEHGTIRIEHPSSRTSLPGVFAAGDVTDHTYRQAI
+TAAGSGCVAAQDVEHYLATVADVEEAAPAGPDSDANPA
+>AS2_ACLBLIBL_00739
+MSTTSTDTTSTEQATDQLIIIGSGPAGYTAAIYAARAGLAPRVIAGSVTHGGALMNTTEV
+ENFPGFPGGIQGPELMAGLAEQAARFGAVIEYDDADTVQLKQHLKEVTTLAGKTYRAPAV
+IVATGSAYRELGLPEEKKLSGHGVSWCATCDGFFFREQDIIVVGGGDSAMEEALFLTRFA
+KSVTVVVRRDALRASKIMAARAKDNEKIRFAYNSAVTAIHGTDKVTGVTLADTITGDTRE
+VAATGVFVAIGHLPRTELVAGQLDLDDEGYIVVDARTTHTNLSGVFACGDAVDHRYRQAI
+TAAGTGCAAALDAERYLAALHDAYSIATALVEEPTH-G
+>KBS0714_MOLHKGIG_02303
+MA-----PTAQDQSVHNVVIVGSGPAGYTAAIYTARAELSPVLVAGAVTAGGELMNTTEV
+ENFPGFPEGVQGPELMANLEAQARRFNTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAV
+ILTTGSAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFA
+SKVTVLVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEAST
+LDVTGLFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAV
+TAAGSGCVAAQDVEHYLATVADVEEAAPAGPESDANPA
+>KD337_NAFOICDF_00386
+MT-----TAEQDQQVRNVAIIGSGPAGYTAAIYTARANLSPVLLAGSVTAGGELMNTTEV
+ENFPGFPEGIQGPELMANLEAQARRFDTEVVYDDVVQADLTSDPKVLTLGDGSQIRAHAV
+IMTTGSAYRELGVEGEKRLSGHGVSWCATCDGFFFREQEIAVAGGGDSAMEEALFLTKFA
+SKVHVLVRRGELRASKIMAQRALEEPKIEFHWNTEVAEVQGDDKLSTLTLRDTVTGEESS
+LEVTGLFVAIGHDPRTDLVKGQLELTEHGTIRIDHPSSRTSVPGVFAAGDVTDHTYRQAI
+TAAGSGCVAAQDVEHYLATVADVAEAAPAAPDSDSV-A
+>SA211_MHAAABBN_01996
+MA-----PTAQDPSVHNVVIVGSGPAGYTAAIYTARADLSPVLVAGAVTAGGELMNTTEV
+ENFPGFPEGVQGPELMANLEAQARRFDTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAV
+ILTTGSAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFA
+SKVTVLVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEAST
+LDVTGLFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAV
+TAAGSGCVAAQDVEHYLATVADVEEAAPAGPESDANPA
+>TT9_LFPAFLNI_02244
+MA-----PTAQDQSVHNVVIVGSGPAGYTAAIYTARADLSPVLVAGAVTAGGELMNTTEV
+ENFPGFPEGVQGPELMANLEAQARRFNTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAV
+ILTTGSAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFA
+SKVTVLVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEAST
+LDVTGLFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAI
+TAAGSGCVAAQDVEHYLATVADVEEAAPAGPESDAVPA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000095.fa

@@ -0,0 +1,25 @@
+>AS2_ACLBLIBL_00560
+MT-------------ACSVPVSTAAAP--VLADD-----------CCSLADGP--LGAED
+AAELAVLLKALADPMRLRLLSHVAARGCADVCA-CDLTEELGIAQPTVSHHMKRLVDAGL
+LTREQRGRWAHYTVVPEAFARLRRVLV-------LG
+>AS2_ACLBLIBL_00743
+M-----------------VATTTIPAP--EDTDRPEGDDALGSVACCSLSAGP--IDAAQ
+AQRAAGMFKALADPMRLRLLSHVAAQGCAAVCS-CDLTEELGISQPTVSHHMKKLVEAGL
+LTREQRGRWAHYTVVPAAFAELGRMLE-------LG
+>KBS0714_MOLHKGIG_02070
+M-----------------STTTSITAAGLETMNGPEG--------CCTLSAGP--VDSVE
+AERIASLLKALSDPTRLRLLSHVAAQGCNSVCA-CDLTEPLGISQPTVSHHMKKLVDAGL
+LTREQKGRWAHYSVVPSAFAELRSFLD-------IA
+>KD337_NAFOICDF_00486
+M---------------------TTTAP--SPSD------------TCCAPAGPALLPAEH
+AARLAAVFKALADPTRVRVLAHVAASPEGTVCA-CHLPEPLGISQPTLSHHLKTLTAAGL
+VTREQRGRWAHYTAVPAALDAARAFLADPA----GA
+>SA211_MHAAABBN_01107
+MDVKVYVPEFAVEFDTCQYVPMSMSGL--SARDAALG-------YCTPLAREP--ITPAQ
+AEGVSRMLKALADPVRLRLMSMILSHEGAEACAMCDLTEGFDLSQSTLSHHLKVLHDAGL
+VDRDKRGVWVYYKARTEAMDALRTLFSGDLAAPQLA
+>TT9_LFPAFLNI_01998
+M-----------------STTTAITAAGLETMNGPEE--------CCTLSAGP--VDSVE
+AERIASLLKALSDPTRLRLLSHVAAQGCNSVCA-CDLTEPLGISQPTVSHHMKKLVDAGL
+LTREQKGRWAHYSVVPSAFAELRSFLD-------IA
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000104.fa

@@ -0,0 +1,43 @@
+>AS2_ACLBLIBL_00705
+MPDIIEFPLPASSDDPHWRAYCQLGDEYNHELIGTTEWDETPTDALIQAAAETDHTLRRY
+LAYVDGEAVGYARVLINHVDDPDAASLTVYVHPRHRGRGHGRALAERLVLDTAGLTRFET
+WPLTPRPAVGQRALTPPNGAGMVPAGHPGVRLAQSYGFALVQIERVSRYDFADPGIDPAV
+AVAEAERVSSGYELHAWEGAADASLQDDLAVLKARMATDVPSGERTVVEQVWDAARVRRM
+DEQILTTGRLFRAVARHRATGRIVALSELVAPRSRPDGLIDQWDTIVLPEHRGHRLGMRV
+KAANLIAVRDALPEARAIITWNAEENRHMLDVNEALGFRPVLVEASMEAPAPLRR--R
+>KBS0714_MOLHKGIG_02079
+MPDIIEFPLPASSDDPHWRAYCRLGDEYNHELIGTTEWDETPTDALIQAAAETDHTQRRY
+LAYVDGEAVGYARVLINHVDDPDAAALNVYVLPRHRGRGHGRALAERLVQDTAGLTRFET
+WPLTPRPVAGQRTLTPPNGAGAVPAEHPGVRLAQSYGFALVQIERVSRYDFADPGIDPAV
+ALAEAERVSSDYELHAWEGAADASLQDDLAVLKARMATDVPSGERTVVEQVWDAARVRRM
+DEQILTTGRLFRAVARHRATGRIVALSELVAPRSRPDGLIDQWDTIVLPEHRGHRLGMRV
+KAANLIAVRDALPEARAIITWNAEENRHMLDVNEALGFRPVLVEASMEAPAPLRR--R
+>KD337_NAFOICDF_00615
+MPDIIEFPLPASSDDPHWRAYCQLGDEYNHELIGTTEWDETPTDALIQAAAETDYTQRRY
+LAYVDGEAVGYARVLINHVDDPDAASLNVYVHPRHRGRGHGRALAERLVQDTAGLTRFET
+WPLTPRPVAGQRALTPPNGAGVVPAEHPGVRLAQSYGFALVQIERVSRYDFADPGIDPAV
+ALAEAERVSSDYELHAWEGAADAALQDDLAVLKARMATDVPSGERTVVEQVWDAARVRRM
+DEQILTTGRLFRAVARHRATGRIVALSELVAPRSRPDGLIDQWDTIVLPEHRGHRLGMRV
+KAANLIAVRDALPEARAIITWNAEENRHMLDVNEALGFRPVLVEASMEAPAPLRR--R
+>KD337_NAFOICDF_00619
+MPDILEFPLPATADEAHWQAYCRLNRDHNHELLGTTEWDESPDDALLDAAAESDYTLRRF
+LALDDGTPVGNGRILVNHVDEPDAASLSVFIHPDHRRRGHGRALAERIAREADGFTRFET
+WPMTPLPAEGERALRPSSGAGAVPADHPGVRLALSYGFALGQVERVSRYDVLTPAVDPAD
+ALAEAERPGADYEVLTWEGPADEAVRADLAVLKERMATDVPSGDLTVAEQTWDAGRVRRQ
+EEQILLTGRLFRAAVRHRDTGRIVGVNELVAPRSRTSGLVDQWDTIVSPEHRGHRLGMRV
+KAANLVALRRALTEARAIITWNAEENRPMLDVNEALGFQPILVEAEMQAHGPLRRVVP
+>SA211_MHAAABBN_01783
+MPDIIEFPLPASSDDPHWRAYCHLGDEYNHELIGTTEWDETPRDALIQAAAETDHTQRRY
+LAYVDGEAVGYARVLINHVDDPDAAALNVYIHPRHRGRGHGRALAERLVLDTAGLTRFET
+WPLTPRPVAGQRTLTPPNGAGAVPAEHPGVRLAQSYGFALVQTERVSRYDFADPGIDPAV
+ALAEAEGVSSDYELHAWEGAADASLQDDVAVLKARMATDVPSGERTVVEQVWDAARVRRM
+DEQILTTGRLFRAVARHRATGRIVALSELVAPRSRPDGLIDQWDTIVLPEHRGRRLGMRV
+KAANLIAVRDALPGARAIITWNAEENRHMLDVNEALGFRPVLVEASMEAPAPLRR--R
+>TT9_LFPAFLNI_02017
+MPDIIEFPLPVSSDDPHWRAYCQLGDEYNHELIGTTEWDETPTDALIQAAAETDHTLRRY
+LAYVDGEAVGYARVLINHVDDPDAAALNVYVHPRHRGRGHGRALAERLVLDTAGLTRFET
+WPLTPPPVAGQRALTPPNGAGAVPAEHPGVRLAQSYGFALAQIERVSRYDFADPGIDPAV
+ALAEAERVSSDYELHAWEGAADASLQDDLAVLKACMATDVPSGERTVVEQVWDAARVRRM
+DEQILTTGRLFRAVARHRATGRIVALSELVAPRSRPDGLIDQWDTIVLPEHRGHRLGMRV
+KAANLIAVRDALPEARAIITWNAEENRHMLDVNEALGFRPVLAEASMEAPAPLRR--R
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000105.fa

@@ -0,0 +1,31 @@
+>AS2_ACLBLIBL_00736
+MSEPTTLDTHVLQRSAEHLAECYAGVFSPETVERYVFESYATLSRTAKVRTYLASTASHF
+ADNRLRALAQSEGKIASPVPQVLFVCVHNIGRSQIAAALLTHHAGDKVEVRSAGSLPGSE
+VHPLVVQALAERGIDLSGAYPKPLTDDVVRAADYVITMGCGDACPVYP----GKRYLDWE
+IADPAAETPDGV---RAIVDAIDTRVKALWDELRSAT----
+>AS2_ACLBLIBL_00740
+MT----------------------------------------------------------
+----------AETTPETTKPSVLFVCVHNAGRSQMAAAYLQRLAGGRIEVRSAGSAPADT
+VNPAAVEAMAEEGIDISANQPKVLSEQAVKDSDVVITMGCGDACPFFP----GKRYEDWK
+LDDPAGRGVEGV---RPIRDEIKTRIQQLITELLPAESTAN
+>AS2_ACLBLIBL_00741
+MTTPE-------------------------------------------------------
+---------------SASRPSVLFVCAKNGGKSQMAAALMEHHAAGAVQVHSAGTKPGKS
+INALSAEVIAEAGADMSAGHPKPIDPDLLARVDRVVVL--GDEARVEPVDGMAGTIVTWH
+TDEPSTRGIEGIERMRLVRDDIDARVRTLLTELTGSPA--S
+>KBS0714_MOLHKGIG_02072
+MT----------------------------------------------------------
+----------------TKRPSVLFVCVKNGGKSQMAAALMRHHAGDAIEVHSAGTRPGTA
+LNAQSTEAIAEVGADMSSAVPQPVTPELLRSVDHVIVI--GDEAVIKPVEGMTAPVTTWY
+TDEPSQRGIEGMERMRLVRDDIDIHVRKLLTDLTQPS---T
+>KD337_NAFOICDF_00488
+MT----------------------------------------------------------
+----------------SDRPSVMFVCVHNAGRSQMAAAYAQHLSGGAVEVRSAGSAPADQ
+VNPAVVEAMAEEGIDLSAERPKVLTPEAVQASDAVITMGCGDACPLYP----GKRYEDWV
+LEDPAGRGVDAV---RPIRDEIRGRVAGLLRELGVEPV--A
+>TT9_LFPAFLNI_02000
+MT----------------------------------------------------------
+----------------TKRPSVLFVCVKNGGKSQMAAALMRHHAGDAIEVHSAGTRPGTA
+LNAQSTEAIAEVGADMSSAVPQPVTPELLRRVDQVIVI--GDEAVIKPVEGMTAPVTTWH
+TDEPSQRGIEGMERMRLVRDDIDTHVRKLLTDLTGTA---N
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000106.fa

@@ -0,0 +1,49 @@
+>AS2_ACLBLIBL_00744
+M-------------AGAVDVLVVGGGQAGLAAGFYLHRLGRDAGRD-RGGPAPSFAVLDA
+NDQPGGAWQYYWDTLELFSPADYSSLPGYRMPAWTGPGNPSAAHVVDYLRSYEDRYGLPV
+HRPVTVHAIEDHPDGG--YLTRTDRGT-WTSRAVINATGSWRRPFVPRMPGAEDFTGSQL
+HTTGYRGREPFAGQRVVVVGGGNSGAQIAADLLPAAAEVTWVTRRPPRYLPDDVDGRALF
+ALATGHVQATRRGEPSPGGVGSL-GDIVAVPPVRAARDAGRLQAQPTFSGFTPTGIRWDD
+-------------------GRKLEVDTVLWCTGFRPDLAHLRPLRPAMEGT-VPATAGDP
+PTRSRDRDGLFFLGYGDWCGPASATLIGVGAPARATATAAARHVLSGG
+>AS2_ACLBLIBL_01038
+M----TTRTAPASPPSAVDVAVIGAGQSGLAAGYFLARAAREAERGRRPGPPSSFVLLDA
+SPGPGGAWPHHWDSLRLFSPAEHSSLPGRRMPPSPGPDTPGADHVVAYLADYEQRYALPV
+RHGVRVTRMEHDADAPHPFTLHREDGPPVAARAVISATGSFTRPFLPAVAFGDGFRGEQL
+HSSAYRRPGPFAGRRVLVVGGGNSGAQIAADLLLAGVETTWATRRPPRFMPDDVDGRHLF
+QTASARVLGR-----SEARVGDL-GDIVMLPPVRRARDEAGLHAVPMVSAFIPDGARWDP
+DAGAVHGWAASSRLAAEVRGAERALDAVVWCTGFRADLRHLRGLDLTHRSSGVPATRREV
+PTASADVPGLHLLGYDDWCGAATATLVGVGVHARGAVDDVLAGLAAG-
+>AS2_ACLBLIBL_02335
+M-------------------------------GHYLNRAGLHP------------LLVDR
+APALGHSWRSRWNSLRLFTPARHNRLADLLFPGDP-EAYPGKDAVADYLQDFARHQSLTP
+ATGTAITDLHGRLGA---FTATTATGRQLRARSVVVATGAFGTPFLPDWAARDGRGPRQL
+HAKNYRTPASVPGQEVLAVGGGNTGVQIALELAATGKRVHLSTGRPRRHLPQRLGGKDMF
+WWLTRT--GA-----MSAPAGSVPGKWLRAHDPIIGTDRAALTGVNIRTRPRATGLQ---
+--GGIVGFADGTRYTPEV---------IVWATGYRHADRWIR-IPAALDPTGVLHA----
+PEGVSPVAGLYTIGRSWQRNRGSALLGFVSTDAAPLAQTILTALAKAP
+>KBS0714_MOLHKGIG_01830
+MTAPLTSPPAATASPDPVDVAVIGAGQAGLAAGYFLARAARDVDRGRRAGPAPSFVLLDA
+SAQPGGAWPHHWDSLRLFSPAEHSSLPGRPMPPSPGPGTPDAGHVVAYLADYEDRYGLPV
+RRGVRVTAVTHDAAASPPFTLRLEDGTALSARAVVSATGSFTRPFVPALPGADRFGGTQR
+HSAAYRSPDAFAGRRVLVVGGGNSGAQIAADLLLAGVATTWATRRPPRFMPDDVDGRVLF
+DRASARVLGR-----SEARVGDL-GDIVMVPSVIRARDEAGLHAVPAPTALTPDGVRWDH
+DAGASHGWPAASRAAARVRGTEHPVDDVVWCTGFRADLRHLRSLELTRRPSGAPATERAL
+PTASVDVPGLHLLGYDDWCGAASATLAGVGVHARRAVDAILAGLTAG-
+>SA211_MHAAABBN_01527
+MTAPLTSPPAATASPDPVDVAVIGAGQAGLAAGYFLARAARDVDRGRRPGPAPSFVLLDA
+SAQPGGAWPHHWDSLRLFSPAEHSSLPGRPMPPSPGPGTPDAGHVVAYLADYEDRYGLPV
+RRGVRVTAVTHDAAASPPFTLRLEDGTALSARAVVSATGSFTRPFVPALPGADRFGGTQR
+HSAAYRSPDAFAGRRVLVVGGGNSGAQIAADLLLAGVATTWATRRPPRFMPDDVDGRVLF
+DRASARVLGR-----SEARVGDL-GDIVMVPSVIRARDEAGLHAVPAPTALTPDGVRWDL
+GAGASHGWPPDSRAAARVRGAEHPVDDVVWCTGFRADLRHLRGLELTRRPSGAPATERAL
+PTASVDVPGLHLLGYDDWCGAASATLAGVGVHARRAVDAILTGLTAG-
+>TT9_LFPAFLNI_01751
+MTAPLTSPPADAASPDPVDVAVIGAGQAGLAVGYFLARAARDVDRGRRPGPPPSFVLLDA
+SAQPGGAWPHHWDSLRLFSPAEHSSLPGRPMPPSPGPGTPDAGHVVAYLADYEDRYGLPV
+RRGVRVAEVTHDAAASPPFTLRLEDGTALSARAVVSATGSFTRPFVPALPGADRFGGTQR
+HSAAYRSPDAFAGRRVLVVGGGNSGAQIAADLLLAGVATTWATRRPPRFMPDDVDGRVLF
+DRASARVLGR-----SEARVGDL-GDIVMVPSVIRARDEAGLHAVPAPTALTPEGVRWGH
+DAGASHGWPAASRAAARVRGAEHPVDDVVWCTGFRADLRHLRGLELTRRPSGAPATERAL
+PTASVDVPGLHLLGYDDWCGAASATLAGVGVHARRAVDAILAGLTAG-
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000115.fa

@@ -0,0 +1,48 @@
+>AS2_ACLBLIBL_00920
+----MEAITAAVSAFNDKYW--YVVMALLFTAGVWFTIRTVGVQ-VRMLPEMLRSVTAGSQKGFENDGVSPFRAFTISAA
+SRVGTGNVAGVAIAIVIGGPGAVFWMWVLAIIGGATAFVESTLAQLYKQKGPDG-FYGGPAYYIRDGLR---SKWLAAVF
+AVAITVTYGFVFNAVQSNSISESVQANWGVSTTTAWIVGVALAVITGLVIFGGVRRLSAVTNVIVPVMAVFYLVLALIVM
+AVNITEIPGLIALIVGHAFGLQEVTGAAVGMAMVMM---GVRRGMFSNEAGMGSAPNAAATAAVSHPAKQGFVQSLGVYF
+DTLIVCSATAFIILLSNPSYGDGEALGMAVTQGALQQAV-GAWAGPALTVIIFFLAWSSVLGNTYYGEANIRYLAGKRAD
+AAITVFRVLVLLCVVGGALGSVALVWNLADTFAALMATINLVAIIPLGGLAVKLLRDY---ERKLKA---------GEDP
+GFHVSDLPEARNVALWQDTPETAPLQK-------------------------------
+>KBS0714_MOLHKGIG_01939
+MEATVEQITAAITALNDKYW--YVVMALLFVAGVWFTIRTVGVQ-VRMLPEMLRSVTAKSQTGFENDGVSPFRAFTISAA
+SRVGTGNVAGVAIAIVIGGPGAVFWMWLLAIIGGATAFVESTLAQLYKQKGSDG-YFGGPAYYIRDGLG---AKWLAAVF
+AVAITVTYGFVFNAVQSNSISESVQANWGASSTTAWIVGLGLAALTGLVIFGGVRRLSAVTNVLVPVMATFYIFLALIVM
+VVNITEVPGMIALIVGHAFGLREVAGAAVGMTMVMQ---GVRRGMFSNEAGMGSAPNAAATAAVSHPAKQGFVQSLGVYF
+DTLIVCSATAFVILLSNPAYGRGEAIGMQVTQGALQQAV-GAWAGPALTVIIFFLAWSSVLGNTYYGEANIRYLAGRHAG
+PAITVFRVLVLVCVVGGALGSVALVWNLADTFAALMATINLVAIIPLGGLAVKLLRDY---ERKLKA---------GMNP
+GFHISDLPEARNVALWRDEPKTSPLQD-------------------------------
+>KD337_NAFOICDF_00854
+----MGALADAISAFNSKYW--YLVMALLAFAGVWFTVRTVGVQ-VRMLPEMIRSVAAKSPEGGADDGVSPFRAFTISAA
+SRVGTGNVAGVAIAIVLGGPGAVFWMWVMAILGGATAFVESTLAQLYKRKDRDG-FFGGPAYYIRDGLG---LKWLAALF
+AVAITVTYGFVFNAVQSNSISESVQANWGASTTTAWIVGVALAVITALVIFGGVQRLSSVTNVIVPVMAVAYVLLAVVVM
+VINITEIPAMFALIVRHALGFEQVAGAAVGMAMVMQ---GVRRGMFSNEAGMGSAPNAAAAAAVSHPAKQGFVQSLGVYF
+DTLLVCSATAFIILLSNPEYGNTDALGMVVTQNALQQAV-GAWAGPFLTVVIFFLAWSSVLGNTYYGEANIRYLAGERAP
+QWITAFRVLVLLCVVGGALGTVSLVWNLADTFAALMATINLVAIIPLGGLAVKLLQDY---ERKLKA---------GEDP
+HFRLADLPEAKNVPLWGDE--DAELMRTEQGHGAGAREELH-HADRPGRGHGGGSHSA
+>KD337_NAFOICDF_02134
+MDAFVTAATDGLGELSGIIWGPFVLIPLLFLTGLYLTIRLGFVQFLRLGAGLHLGLLRRKDDGDAEGEISQFQALTTALA
+ATVGTGNIVGVATAIAVGGPGALFWMWVTGVLGMASKYSEAFLAVRFRTTDDAGEKSGGPQYYLQRGIKGGLGKGLALFF
+SVAALLACFGIGNMTQGNSIAVNVDSAFGVPT---WITGAVLAVMTMVVLVGGIKSIGKVTAGFVPVMIVFYVLGALWIL
+IVNASAIPSAFATIFTEAFTGSAAVGGFTGSAMIVAVQYGMARGIFSNESGMGSAAIAAAAAQTTHPVRQGLVSMTQTFI
+DTIIVVTCTG-LVLITTGTWTEGKATAATMTSDAFATGLPGNWGHWIVTIGLVMFAYSTILGWSYYGERQVERLFGTR--
+-LIMPFRVLFSLVVFFGCTTELDLAWTFSDVMNGLMAIPNLLGLLILSGLIARETRLYLKHDPKLVATEAQIRDFMAEDP
+GYR-----------EWLAQ--EKQLDR---AHA----EHLHPHAT-------GGSSVR
+>SA211_MHAAABBN_01635
+MEATVEQITAAVTAFNDKYW--YVVMALLFVAGVWFTIRTVGVQ-VRMLPEMLRSVTAKSQTGFENDGVSPFRAFTISAA
+SRVGTGNVAGVAIAIVIGGPGAVFWMWLLAIIGGATAFVESTLAQLYKQKGADG-YFGGPAYYIRDGLG---AKWLAAVF
+AVAITVTYGFVFNAVQSNSISESVQANWGASSTTAWIVGLGLAALTGLVIFGGVRRLSAVTNVLVPVMATFYIFLALIVM
+VVNITEVPGMIALIVGHAFGLREVAGAAVGMTMVMQ---GVRRGMFSNEAGMGSAPNAAATAAVSHPAKQGFVQSLGVYF
+DTLIVCSATAFVILLSNPAYGRGEALGMQVTQGALQQAV-GAWAGPALTVIIFFLAWSSVLGNTYYGEANIRYLAGRHAG
+RAITVFRVLVLVCVVGGALGSVALVWNLADTFAALMATINLVAIIPLGGLAVKLLRDY---ERKLKA---------GMDP
+GFHISDLPEARNVALWRDEPKTSPLQD-------------------------------
+>TT9_LFPAFLNI_01858
+MEATVEQITAAITALNDKYW--YVVMALLFVAGVWFTIRTVGVQ-VRMLPEMLRSVTAKSQTGFENDGVSPFRAFTISAA
+SRVGTGNVAGVAIAIVIGGPGAVFWMWLLAIIGGATAFVESTLAQLYKQKGSDG-YFGGPAYYIRDGLG---AKWLAAVF
+AVAITVTYGFVFNAVQSNSISESVQANWGASSTTAWIVGLGLAALTGLVIFGGVRRLSAVTNVLVPVMATFYIFLALIVM
+VVNITEVPGMIALIVGHAFGLREVAGAAVGMTMVMQ---GVRRGMFSNEAGMGSAPNAAATAAVSHPAKQGFVQSLGVYF
+DTLIVCSATAFVILLSNPAYGRGEAIGMQVTQGALQQAV-GAWAGPALTVIIFFLAWSSVLGNTYYGEANIRYLAGRHAG
+PAITVFRVLVLVCVVGGALGSVALVWNLADTFAALMATINLVAIIPLGGLAVKLLRDY---ERKLKA---------GMNP
+GFHISDLPEARNVALWRDEPKTSPLQD-------------------------------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000116.fa

@@ -0,0 +1,37 @@
+>AS2_ACLBLIBL_01016
+MTTTLASQTDLDPMRTPAAAAAHRIAPGTAAPDGSGGTPALSVRDLVLEYPDGERGVLRA
+LDEVSLDLHAGTFTALVGPSGSGKSSLLAVAAGLVPPTSGTVTVAGRELTGLSRTERTGL
+RGREIGVIFQQPNLIPSLTAAEQLELSVHLDRDATRTDRKAARDRAMALLERVDLADQAG
+KRPHQLSGGQRQRVNIVRALMAS----PALLLVDEPTSALDRERSAAVVDLLGALTRDEG
+TATLMVTHDHEFLAATDRTLTMVDGRLTD-------
+>AS2_ACLBLIBL_01058
+M---------------------------------STTTPVIQLSSVTKTYQRRD-----L
+YTDASVTVIPGRAHAIVGPNGSGKSVMMRLMCGFLLPSSGSVTIDPRYLDG----RRT--
+FPDKFGVVIDKPGMLPHLTGLENL-------RRLAEIQKKIGDERIREVMQSFGLDPDAR
+QRVHQYSLGMKQKLNLCQAVMED----PEVLVLDEPFNALDADSADALRGRLASFVADGG
+TLVFTSHDSRDVEQLADSVIRLENGRVTQEDASPRT
+>KBS0714_MOLHKGIG_01852
+MTTLTAPQADLDALRTPAAAAAHRVA-GERPAAAADATPALSVRDLVLEYPDGERGVLRA
+LDEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGSVSVAGREMAGLSRKERTAL
+RGQEIGVIFQQPNLIPSLTAAEQLELTVHLDRDATRADRRAAKARAMELLERVDLADQAG
+KRPHQLSGGQRQRVNIVRALMAS----PTLLLVDEPTSALDRERSAAVVDLLGTLTREEQ
+VATLMVTHDHEFLSVTDRTLTMVDGRLSAE------
+>KD337_NAFOICDF_00958
+M-TISTHTPDLSAYRSPAAA---RVTAHDAAPAAPDAAPVLSVRDLVLEYPDGEGRTLRA
+LDGVSLDLTPGTFTAMIGPSGSGKSSLLAVAAGLIAPTSGSVTVAGTELTGLSRAARTRL
+RGDRIGVVFQQPNLLPSLTAREQLELVVRLDPKSTRADRTAAAARAQELLERVDLGRRAD
+QRPHQLSGGQRQRVNIVRALMGTGSGAPALLLVDEPTSALDRERSAAVVELLGELTRQEG
+VATLMVTHDHEFLGATDRVLTMVDGRLAA-------
+>SA211_MHAAABBN_01548
+MTALTAPQADLDALRTPAAAAAHRVA-AERPATAADATPALSVRDLVLEYPDGERGVLRA
+LDEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGSVSVAGREMAGLSRKERTAL
+RGQEIGMIFQQPNLIPSLTAAEQLELTVHLDRDATRADRKAARARALELLERVDLADQAR
+KRPHQLSGGQRQRVNIVRALMAS----PTLLLVDEPTSALDRERSAAVVDLLGTLTREEQ
+VATLMVTHDHEFLSATDRTLTMVDGRLHAE------
+>TT9_LFPAFLNI_01772
+MTTLTAPQADLDALRTPAAAAAHRVA-GERPAAAADATPALSVRDLVLEYPDGERGVLRA
+LDEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGCVSVAGREMAGLSRKERTAL
+RGQEIGMIFQQPNLIPSLTAAEQLELTVHLDRDATRADRRAAKARALELLERVDLADQAG
+KRPHQLSGGQRQRVNIVRALMAS----PTLLLVDEPTSALDRERSAAVVDLLGTLTREEQ
+VATLMVTHDHEFLSATDRTLTMVDGRLSAE------
+ 

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000117.fa

@@ -0,0 +1,60 @@
+>AS2_ACLBLIBL_01024
+MSPRRRTGSTAAPETSTLSVVDPAAARDLRVLGVRAEETLEYTPEERRHVRRRSWALLRQLAGPAKGMLWLTVVLVVVSN
+AARAAVPLVIAWAIDWGLPQVVEAVRTGADAWGVVVLVGGAYALTGVTGGVLLGLYQWLTARASQRMLLALRVRVFRHTQ
+RL----SLGFHEKYTSGRVISRQTSDLEALRELLDQGVSSLVSGVLFMAFTAVSIVLLDPPSALVLLVA----FIPVAVA
+VRWYQKRSEEAYRRSRVSSARAIVHFVETMTGIRAVQAFRRQ---------RANEAKYTR--LATDYRDDMVHTLTLFGV
+LQPVL----VVTGNLTVAALLVFGGLRVLSGDL-EVGVLVALVLAGRRVFQPMEMVAMFYSSFQSAGAALEKVSGLLEEE
+PAVVEAPEPTPLPGAAAAGEGVASGRIEFRDAVFGYGPEKVVLPEFDLTVPAGQTVAVVGQTGAGKSTLVKLIARFYDLT
+SGSLTLDGVELKELASADLRRNVVMVTQEAFLFSGTVAENIALGRPGASEAEIQAAARAVGAHEFILDLPEGYDTDVSKR
+GGRLSAGQRQLVSFARAFLADPAVLILDEATSSLDLPSERLVQDGLERLLGNRTALIIAHRLSTVEIADRVLVVHDGRVV
+EDGSPAELVA------------------------------------AGGRFAALHRAWE--DSLVPDDA
+>AS2_ACLBLIBL_01331
+M---------------------PA-------LFVG---------------RRR---------------------LLLLGL
+AGLGLLQAALSVAVAVLTPRLLTA---GAGAWGL--------AAALLVAALLVGGARILERVAAE----DLGQDYVRETR
+RLLVTSALVPEKSLNLGSTIARTTNDLTAVKNWIALGISPIVVGVPLIVGIVIGLFVLLPTLGLVVVVTLGVFFTGLWAL
+SRVF-FRRAVAVRRVRGKMAGYVADTVTAAGSIRTAGGVQREVGRVDRISGQLQDAAHRRAVVSGTMRGSAASITTVLGV
+LVAITGSAAGSTGAAITTAVFIAGMLGAPVTELGRVGEYRQNYNAACRVLRPI----------------IENARGHARRE
+RRQKRARTRMRHHGNPRGLSRDAVHLADLRDA-------EGTIPA--LVAAPGSRVLLTGGSRERLERVTREITGDMPAS
+DAWITVAGRHLYAMTAKDRRELIGVAARDVPLQRGTISRIVRYRHRGAGETVAQVLDR-VGMAERVARLPEGDATRLKRG
+GEPLSINERALLKIAGAVAGNPPLLVLDHVDDQLDARDRPI----LRRILADYPGCVILRSASPHELLERYEVYN----V
+DELAPTLVVAPSVLHSRIQGERPTTYVIGADRDPFGPPVRHSAVELAGTRAASAPRLGESADDLEGVDE
+>KBS0714_MOLHKGIG_01844
+M----------------------SAADVSRVRGVGAEEDLDYTRAERRHIRRRSFRLLGELARPVRGTLLVTVVFVLVSN
+AARAAGPLIIAWAIDAELPRVVEAVRAGESVWPILVPVGGAYVAAALVSGGLLGAYTWLTARASQAMLLSLRLRVFRHTQ
+RL----SLGFHERYTSGRVISRQTSDLEALRELLDQGVSSLVSGLMFMSFTAASILLLDPPSFLVLLGA----AVPVAIV
+TRWYQVRSEEAYRRSRVSSARSIVHFVETMTGIRAVQAFRRE---------RDNDARYRD--LATAYRDDMVATLNLFGI
+LQPVL----VATGNLTVAALLVTGGLRVLDGDL-EVGVLVALLLAGRRVFQPMEMVAMFYSSLQSATAALEKVSGLLEEE
+PTVVEAAEPTPLPGADAPGTGVASGRVEFRDAVFSYGPDRVVLPEFDLVIPAGQTVAVVGQTGAGKSTLAKLIARFYDVS
+AGSLTLDGVELRELSQADLRRNVVMVTQEAFLFSGSIAENIALGRPDATEAEIQAAARAVGAHDFILGLPEGYATDVAKR
+GGRLSAGQRQLVSFARAFLADPAVLILDEATSSLDLPSERLVQAGLERLLGNRTALIIAHRLSTVETADRVLVMHDGRIV
+EDGSPAELVA------------------------------------ADGRFAALHRAWE--DSLA----
+>KD337_NAFOICDF_00965
+MSRRADT----APVTSTLTVVDPAEAAGLRVLGVGAEESLDYTPAERRHVRRRSWALLRQLARPVRGMLWLTAALVVLSN
+AARAAMPLVIAWSIDDALPRALEAVRAGTDPTGVVVQTGALYAVTGLVGGVLLGLYQWLTAKASQRMLLALRVRVFRHTQ
+RL----SLGFHETYTSGRVISRQTSDLEALRELLDQGVSSLVSGVLFTAFTAVSILLLDPPSFLVILVA----FVPVAIA
+VRWYQVRSEEAYRRSRVSSARSIVHFVETMTGIRAVQAFRRQ---------RAGERAYAR--LATDYRDDMMHTLNLFGV
+LQPVL----VAVGNLTVAALLLFGGLRVLSGDL-AVGVLVALLLAGRRVFQPMEMVAMFYSSLQSATAALEKVSGLLEEE
+PAVVEPAHPVALPGAERPGEGVASGRIEFRDAVFGYGSDAVVLPGFDLTVPAGQTVAVVGQTGAGKSTLVKLIARFYDLT
+SGSLTLDGVELKDLAGADLRRNVVMVTQEAFLFSGTVGENIALGRPDASEAEIQAAARAVGAHEFILDLPEGYATDVSKR
+GGRLSAGQRQLVSFARAFLADPAVLILDEATSSLDLPSERLVQDGLERLLGNRTALIIAHRLSTVEIADRVLVVHDGRIV
+EDGSPTELVA------------------------------------AGGRFAALHRAWE--DSLVGEG-
+>SA211_MHAAABBN_01541
+M----------------------SAADVSRVRGVGAEEDLDYTRAERRHIRRRSFRLLGELARPVRGTLLVTVVFVLVSN
+AARAAGPLIIAWAIDAELPRVVEAVRAGESVWPILVPVGGAYVAAALVSGGLLGAYTWLTARASQAMLLSLRLRVFRHTQ
+RL----SLGFHERYTSGRVISRQTSDLEALRELLDQGVSSLVSGLMFMSFTAASILLLDPPSFLVLLGA----AVPVAIV
+TRWYQVRSEEAYRRSRVSSARSIVHFVETMTGIRAVQAFRRE---------RDNDARYRD--LATAYRDDMVATLNLFGI
+LQPVL----VATGNLTVAALLVTGGLRVLDGDL-EVGVLVALLLAGRRVFQPMEMVAMFYSSLQSATAALEKVSGLLEEE
+PTVVEAAEPTPLPGADAPGTGVASGRVEFRDAVFSYGPDRVVLPEFDLVIPAGQTVAVVGQTGAGKSTLAKLIARFYDVS
+AGSLTLDGVELRELSQADLRRNVVMVTQEAFLFSGSIAENIALGRPDATEAEIQAAARAVGAHDFILGLPEGYATDVAKR
+GGRLSAGQRQLVSFARAFLADPAVLILDEATSSLDLPSERLVQAGLERLLGNRTALIIAHRLSTVETADRVLVMHDGRIV
+EDGSPAELVA------------------------------------ADGRFAALHRAWE--DSLA----
+>TT9_LFPAFLNI_01765
+M----------------------SAADVSRVRGVGAEEDLDYTRAERRHIRRRSFRLLGELARPVRGTLLLTVVFVLVSN
+AARAAGPLIIAWAIDAELPRVVEAVRAGESVWPILVPVGGAYVAAALVSGGLLGAYTWLTARASQAMLLSLRLRVFRHTQ
+RL----SLGFHERYTSGRVISRQTSDLEALRELLDQGLSSLVSGLMFMSFTAASILLLDPPSFLVLLGA----AVPVAIV
+TRWYQVRSEEAYRRSRVSSARSIVHFVETMTGIRAVQAFRRE---------RDNDARYRD--LATAYRDDMVATLNLFGI
+LQPVL----VATGNLTVAALLVTGGLRVLDGDL-EVGVLVALLLAGRRVFQPMEMVAMFYSSLQSATAALEKVSGLLEEE
+PTVVEAAEPTPLPGADAPGTGVASGRVEFRDAVFSYGPDRVVLPEFDLVIPAGQTVAVVGQTGAGKSTLAKLIARFYDVS
+AGSLTLDGVELRELSQADLRRNVVMVTQEAFLFSGSIAENIALGRPDATEAEIQAAARAVGAHDFILGLPEGYATDVAKR
+GGRLSAGQRQLVSFARAFLADPAVLILDEATSSLDLPSERLVQAGLERLLGNRTALIIAHRLSTVETADRVLVMHDGRII
+EDGSPAELVA------------------------------------ADGRFAALHRAWE--DSLA----

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000119.fa

@@ -0,0 +1,54 @@
+>AS2_ACLBLIBL_01081
+M--STAPRRRVTGYPSTSGDDVQLNTTTLIRHAARTHGDQEIVYRTPDGG-WDRYTYAEAYERIRRAANAMTGLGVSPGD
+RVGVIDWNSRRHYELYWAIPGIGATMVQVNLRLAPEDLVHVLTDSGCTTVFVDESLLRHAEVIAPRLPEVTTWVVMTDRP
+LSEIETTLPGVRHYEDLLASASPDV--DWPEVEETSAYGACYTTGTTGRPKGVFYSHRAIVLHSYALAASIGMTLRDATM
+IITPMFHGQAWGLPQAATLMANKIVLPGRYMAEDTAPLTDALIAEEVTITSGAPAIFQPMLAYIETLDEKPDLSRLRMIS
+GATEPSLSLMRGFRDLTGAEVVHAYGATETTPLVTVNRYKPGVLARLDEPALMDLKRKQGLPLTNVDLRIVGPGDENLPF
+DGVSQGEICVRGPWVTTGYHGMSEADAEGRFLDGYWRSGDVGTVDSDGYLKVTDRLKDVIKSGGEWISSIDMENLLTSHP
+AITEAAVVGLPHPKWQERPYVQVMLRPGATITLAEVHEHLSGAFASWQLPERVDVVTELPRTSVGKIDKKTIRGRHTDLY
+ADASEAARPGGGAGDVEEGGRA
+>KBS0714_MOLHKGIG_01795
+M--STAPRRRVTGYPSTSGDDVQLNTTTLIRHAARTHGDQEIVYRTPDGG-WDRYTYAEAYERIRRAANAMTGLGVSPGD
+RVGVIDWNSRRHYELYWAIPGIGATMVQVNLRLAPEDLVHVLTDSGCTTVFVDESLLRHAEVIAPRLPEVTTWVVMTDRP
+LSEIETTLPGVRHYEDLLASASPDV--DWPEVEETSAYGACYTTGTTGRPKGVFYSHRAIVLHSYALAASIGMTLRDATM
+IITPMFHGQAWGLPQAATLMANKIVLPGRYMAEDTAPLTDALIAEEVTITSGAPAIFQPMLAYIETLDEKPDLSRLRMIS
+GATEPSLSLMRGFRDLTGAEVVHAYGATETTPLVTVNRYKPGVLARLDEPALMDLKRKQGLPLTNVDLRIVGPGDENLPF
+DGVSQGEICVRGPWVTTGYHGMSEADAEGRFLDGYWRSGDVGTVDSDGYLKVTDRLKDVIKSGGEWISSIDMENLLTSHP
+AITEAAVVGLPHPKWQERPYVQVMLRPGATITLAEVHEHLSGAFASWQLPERVDVVTELPRTSVGKIDKKTIRGRHTDLY
+ADASEAARPGGGAGDVEEGGRA
+>KBS0714_MOLHKGIG_02050
+M-QTTDT---VLGTPSTMGDDEQLTTTRLLRDAARTFGDQQIIHTRGGGSRWQTTTYAAVWERVRRIAAALRAEGVGPGD
+RVGLLLWNDVRHLESYFSVPLLGATMVQLNLRLAPTDLAYVITHAQVGTIVVDETLLELAAALEPHLPDGVRWIVAGDGE
+LPADWAGRDDVLSYEALLDGHEPLETGGLPNVSERSASGACYTTGTTGRPKGVFYSHRATWLHAHAVVSTLGMTMADTAL
+LLTPMFHAQCWGLPFAAVAVGARLVLPGRFNLTDTPWLTSTLVDHGVTVAPAAPAILMPMLHHLRTLETPPRMDGVRLLC
+GATEPPVAMMRGFDELTGAEVIHAYGATETSPIVSLNRMKPSLMDTLSEDERWNLKRFQGLVVVGVDVKITDPLGELLPP
+GEENVGEIRLRGPWVTTSYADNAEATEAGFDDEGYWRSGDLGYLSPEGYLKVTDRLKDVVKSGGEWISSIDLENHIMTVP
+GVRDAAVIGVPHPQWEERPLALVVRDEDSDVDQDAVLAALAERFATWQLPDEVRFVTEIDRTGVGKVNKRKLRADYADAL
+TSGR------------------
+>KD337_NAFOICDF_00730
+MNSATAP---VLGTPSTMGDDEQLTTSRLFRDAARTYPDQSITHRTIDGE-WKVTDYAATWERMQRVAAGLASLGVGPRD
+RVGLLLWNDLRHFECYFAVPLTGATMVQLNLRLAPQDLAYVIGHSGARTIVVDATLLPLAEALGPHLPEDTRWIVATDGA
+LPDSWAGRADTMSYEDLIERSAPIE--DAPDMDERSASGACYTTGTTGRPKGVFYSHRATWLHAFAIAANTGMTMDDTVM
+LLTPMFHAQCWGLPYASVAVGARVVLPGRFTMQDTALLTESLVEHGVTVAPAAPAILLPMLHYLEGMEETPHLPGLRFLC
+GATEPPVALMQGFDRLMGAEIIHAYGATETSPVVSVNRLRPALAERLSEDEQWDLKRYQGLVVTGVDVKVVDPMGQPLPP
+GERNVGEVMIRGPWITRSYFENPEATEKGFDDEGYWRSGDVGHLSEEGYLKIADRMKDVVKSGGEWISSIDLENHLLTVP
+GVSEAAVVGVPHPTWQERPIALVVRTAGADLSEEQVKAALGARFASWQVPDRVLFVDELDRTSVGKLDKKRLRQVYADAL
+AQGDGPGAPSA-----------
+>SA211_MHAAABBN_01756
+M-QTTDT---VLGTPSTMGDDEQLTTTRLLRDAARTFGDQQIIHTRGGGSPWQTTTYAAVWERVRRMAAALRAEGVGPGD
+RVGLLLWNDVRHLESYFSVPLLGATMVQLNLRLAPTDLAYVITHAQVGTIVVDETLLELAAALEPHLPGGIRWIVAGDGE
+LPADWAGRDDVLSYEALLDGHEPLETADLPNVSERSASGACYTTGTTGRPKGVFYSHRATWLHAHAVVSTLGMTMADTAL
+LLTPMFHAQCWGLPFAAVAVGARLVLPGRFNLTDTPWLTSTLVDHGVTVAPAAPAILMPMLHHLRTLETPPRMDGVRLLC
+GATEPPVAMMRGFDELTGAEVIHAYGATETSPIVSLNRMKPSLMDTLSEDERWNLKRFQGLVVVGVDVKITDPLGELLPP
+GEENVGEIRLRGPWVTTSYADNAEATEAGFDDEGYWRSGDLGYLSPEGYLKVTDRLKDVVKSGGEWISSIDLENHIMTVP
+GVRDAAVIGVPHPQWEERPLALVVRDEDSGVDQDAVLAALAERFATWQLPDEVRFVTEIDRTGVGKVNKRKLRADYADAL
+TSGR------------------
+>TT9_LFPAFLNI_01984
+M-QTTDT---VLGTPSTMGDDEQLTTTRLLRDAARTFGDQQIIHTRGGGSPWQTTTYAAVWERVRRMAAALHAEGVGPGD
+RVGLLLWNDVRHLESYFSVPLLGATMVQLNLRLAPTDLAYVITHAQVGTIVVDETLLELAAALEPHLPGGIRWIVAGDGE
+LPADWAGRGDVLSYEALLDGQEPLETADLPNVSERSASGACYTTGTTGRPKGVFYSHRATWLHAHAVVSTLGMTMADTAL
+LLTPMFHAQCWGLPFAAVAVGARLVLPGRFNLTDTPWLTSTLVDHGVTVAPAAPAILMPMLHHLRTLETPPRMDGVRLLC
+GATEPPVAMMRGFDELTGAEVIHAYGATETSPIVSLNRMKPSLMDTLSEDERWNLKRFQGLVVVGVDVKITDPLGELLPP
+GEENVGEIRLRGPWVTTSYADNAEATEAGFDDEGYWRSGDLGYLSPEGYLKVTDRLKDVVKSGGEWISSIDLENHIMTVP
+GVRDAAVIGVPHPQWEERPLALVVRDEDSDVDQDAVLAALAERFATWQLPDEVRFVTEIDRTGVGKVNKRKLRADYADAL
+TSGR------------------

Biomanus/experiments/ablation/results/biomanus/bioagentbench/comparative-genomics_20260522_115630/orthofinder_output/results/Results_May22/MultipleSequenceAlignments/OG0000121.fa

@@ -0,0 +1,55 @@
+>AS2_ACLBLIBL_01098
+-----------------------------------------------------------M
+RVRFRGTDARQALLLRGPAGWAEFSPFPEYGPAESSAWLAAAIEAGWQGWPAPVR-----
+---------DVVPVNATVP--------------------AVEAEAVESVLARYGEGITA-
+---VKVKVAEHRPGGGLVPGSHSADLARVRRVRELLPDAHVRIDANAGWTPAEAIAMLTD
+LADVGL--EYAEQPVPG--IKKLARVRRELRARGVSTPIAADEAVRKAEDPLAVAAAGAA
+DLIVVKVQPLGGVRRAAAV---VAAAGLPAVVSSALDTSVGIAGGAALATHLPALPHACG
+LGTAALFDDDVVTPAWTPRQGVLEAPGERAPEPDPALLARVRADERTHAWWRDRVAAAHA
+VLAAGGR
+>KBS0714_MOLHKGIG_01779
+MST-----------APALPPLPGA-------------PGGPALPSVEELLADAVAVAVPM
+RVRFRGTDLRHALLLRGPAGWGEFSPFPEYGPHESAAWLAAAIEAGWQGWPAPVR-----
+---------ETIPVNATVP--------------------AVDADDVEAVLARYGDGITA-
+---VKVKVAEHGPEGGLVPGGREADLARVRRVRALLPHAQVRVDANAGWTPAEAVDVLTE
+LADVGL--EYAEQPVPG--ITDLAEVRAELRARGVPTPIAADEAVRKAEDPLAVAAAGAA
+DLIVVKVQPLGGVRRAAAI---VAAAGLPAVVSSALDTSVGIAGGAALAACLPSLPHACG
+LGTAALFEHDVVAPAWRPRAGALPAPGERAPAPDPELLDRIRADGTRQAWWADRVRAAHA
+VLAAQG-
+>KD337_NAFOICDF_01022
+MTVPAAHDDADPRPGSALPPLPGA-------------PGGPALPDVDELLEHAVAVTLPM
+TVRFRGTTERRALLLRGPAGWAEFSPFPEYGPAEASRWLAAAVEAGWQGWPAPVR-----
+---------SEVPVNATVP--------------------AVDAADVESVLARYGDGITA-
+---VKVKVAEHRPGGGLVDPTHAADVARVRRVRELLPEAAVRIDANAGWDEDRAFAVLGA
+LQDVGL--EYAEQPVPG--IAGLAALRSRLRAAGIATPIAADEAVRKETDPLAVAQAGAA
+DLIVVKVQPLGGVRRAAAI---VAAAGLDAVVSSALDTSVGIAGGAALAAHLPSLPFACG
+LGTASLFAHDVVSPAWRPADGSLPAPGERAPEPDPALLAAARADAAEHAWWAERLRAAHA
+VLAARGR
+>KD337_NAFOICDF_01806
+MSP-----------APGQAPVSVAAVRRHRHRAPLLHPFVTAARRTEAVEYVVVEVELSD
+GTVGQGSAAETVAVTGEDAASIETAVDGVFGPALTGA--TGGLDGLLARLPAPARGATSA
+RSAVDVAVHDAVARAAGVPLTALLAPAGTAVKQTLENDMTVSLEDPATMAARAAEAVAAG
+TRILKIKLGRDV----------AEDRRRLHAVLEAAPQARLRLDANQGWSVEDAIAIISG
+MEDEGLPVDLVEQPVAAADVAGLARVRA-----AVTTPIMADEALWSSEDARRLIEAGAA
+DLFNVKLAKTGGLADAVAIADLAAEHGIGCMVGSMMEPRISIAAAVQLSLAHPAVTMV--
+---------DLDAPLWFASDA--PAGGYTQEGADLRLLPG-------EGLALERLDPGTD
+PV-----
+>SA211_MHAAABBN_01486
+MST-----------APALPPLPGA-------------PGGPALPSVEELLADAVAVALPM
+RVRFRGTDLRHALLLRGPAGWAEFSPFPEYGPHECAAWLAAAIEAGWQGWPGPVR-----
+---------QTVPVNATVP--------------------AVAADDVEAVLARYGDGITA-
+---VKVKVAEHGPEGGLVPGGREADLARVRRVRALLPHAQVRVDANAGWTPAEAVDVLTA
+LADVGL--EYAEQPVPG--ITALAEVRAELRARGVPTPIAADEAVRKAEDPLAVAAAGAA
+DLIVVKVQPLGGVRRAAAI---VAAAGLPAVVSSALDTSVGIAGGAALAACLPSLPHACG
+LGTAALFEHDVVAPAWRPRAGALPAPGERAPAPDPELLDRIRADGTRQAWWADRLRAAHA
+VLAAQG-
+>TT9_LFPAFLNI_01708
+MST-----------APALPPLPGA-------------PGGPALPSIEELLADAVAVALPM
+RVRFRGTDLRHALLLRGPAGWAEFSPFPEYGPHESAAWLAAAIEAGWQGWPAPVR-----
+---------QAVPVNATVP--------------------AVDAADVEAVLARYGDGITA-
+---VKVKVAEHGPEGELVPGSREADLARVRRVRALLPHAQVRVDANAGWTPTEAVDVLTA
+LADVGL--EYAEQPVPG--ITDLAEVRAELRARGVPTPIAADEAVRKAEDPLAVAAAGAA
+DLIVVKVQPLGGVRRAAAI---VAAAGLPAVVSSALDTSVGIAGGAALAACLPSLPHACG
+LGTAALFEHDVVAPAWRPRAGALPAPGERASAPDPELLDRVRADGARQAWWADRVRAAHA
+VLAAQG-
+