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  1. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/AS2.tsv +1 -0
  2. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/KBS0714.tsv +1 -0
  3. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/KD337_16.tsv +1 -0
  4. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/SA211.tsv +1 -0
  5. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/TT9.tsv +1 -0
  6. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000002_tree.txt +1 -0
  7. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000011_tree.txt +1 -0
  8. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000019_tree.txt +1 -0
  9. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000021_tree.txt +1 -0
  10. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000022_tree.txt +1 -0
  11. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000030_tree.txt +1 -0
  12. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000032_tree.txt +1 -0
  13. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000038_tree.txt +1 -0
  14. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000053_tree.txt +1 -0
  15. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000055_tree.txt +1 -0
  16. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000059_tree.txt +1 -0
  17. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000070_tree.txt +1 -0
  18. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000071_tree.txt +1 -0
  19. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000073_tree.txt +1 -0
  20. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000078_tree.txt +1 -0
  21. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000079_tree.txt +1 -0
  22. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000085_tree.txt +1 -0
  23. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000086_tree.txt +1 -0
  24. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000102_tree.txt +1 -0
  25. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000121_tree.txt +1 -0
  26. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000122_tree.txt +1 -0
  27. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000125_tree.txt +1 -0
  28. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000127_tree.txt +1 -0
  29. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000137_tree.txt +1 -0
  30. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000154_tree.txt +1 -0
  31. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000158_tree.txt +1 -0
  32. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000167_tree.txt +1 -0
  33. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000172_tree.txt +1 -0
  34. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000175_tree.txt +1 -0
  35. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000179_tree.txt +1 -0
  36. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000182_tree.txt +1 -0
  37. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000194_tree.txt +1 -0
  38. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000197_tree.txt +1 -0
  39. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000198_tree.txt +1 -0
  40. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000200_tree.txt +1 -0
  41. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000203_tree.txt +1 -0
  42. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000210_tree.txt +1 -0
  43. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000211_tree.txt +1 -0
  44. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000213_tree.txt +1 -0
  45. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000225_tree.txt +1 -0
  46. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000226_tree.txt +1 -0
  47. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000236_tree.txt +1 -0
  48. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000243_tree.txt +1 -0
  49. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000245_tree.txt +1 -0
  50. experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000257_tree.txt +1 -0
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/AS2.tsv ADDED
@@ -0,0 +1 @@
 
 
1
+ Orthogroup AS2 Other
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/KBS0714.tsv ADDED
@@ -0,0 +1 @@
 
 
1
+ Orthogroup KBS0714 Other
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/KD337_16.tsv ADDED
@@ -0,0 +1 @@
 
 
1
+ Orthogroup KD337_16 Other
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/SA211.tsv ADDED
@@ -0,0 +1 @@
 
 
1
+ Orthogroup SA211 Other
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Putative_Xenologs/TT9.tsv ADDED
@@ -0,0 +1 @@
 
 
1
+ Orthogroup TT9 Other
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000002_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((KD337_16_NAFOICDF_01837:0,(KD337_16_NAFOICDF_01795:0,KD337_16_NAFOICDF_02208:0)n3:0)n2:0.0040327,(TT9_LFPAFLNI_01540:0.00040598,(KBS0714_MOLHKGIG_01069:0.020798,(AS2_ACLBLIBL_01303:2.14859e-07,(AS2_ACLBLIBL_00757:2.14859e-07,AS2_ACLBLIBL_02332:2.14859e-07)n7:2.14859e-07)n6:2.14859e-07)n5:2.603e-05)n4:0.00161499)n1:0.000690945,((KBS0714_MOLHKGIG_01387:2.14859e-07,((AS2_ACLBLIBL_02630:0,AS2_ACLBLIBL_02348:0)n11:0.0265228,(SA211_MHAAABBN_01117:0.00997735,(SA211_MHAAABBN_00320:2.14859e-07,(SA211_MHAAABBN_02266:2.14859e-07,SA211_MHAAABBN_01328:2.14859e-07)n14:2.14859e-07)n13:2.14859e-07)n12:2.14859e-07)n10:1.277e-05)n9:0.00136415,((SA211_MHAAABBN_00787:0.00123687,((TT9_LFPAFLNI_01019:0.00622306,(SA211_MHAAABBN_00332:0,KD337_16_NAFOICDF_02231:0)n19:0.00696494)n18:0.0154368,(SA211_MHAAABBN_01659:0.00804765,((TT9_LFPAFLNI_01883:0,TT9_LFPAFLNI_00113:0)n22:0.00507023,(KD337_16_NAFOICDF_00316:0.0496737,(KD337_16_NAFOICDF_00621:0,KD337_16_NAFOICDF_00626:0)n24:0.00225519)n23:0.000250577)n21:0.00882327)n20:0.00487737)n17:0.00526825)n16:0.00217197,(AS2_ACLBLIBL_01280:0.00212247,(AS2_ACLBLIBL_01318:0,AS2_ACLBLIBL_01313:0)n26:0.00353253)n25:0.0242073)n15:0.0026897)n8:0.000690945)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000011_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((AS2_ACLBLIBL_00719:0.0109301,(KBS0714_MOLHKGIG_02074:0.0180519,((SA211_MHAAABBN_00339:0,SA211_MHAAABBN_01779:0)n5:0,KBS0714_MOLHKGIG_00616:0)n4:0.00956062)n3:0.00106229)n2:0.0786902,TT9_LFPAFLNI_02002:0.0440971)n1:0.0312093,((AS2_ACLBLIBL_00727:0.0449685,AS2_ACLBLIBL_02366:0.0709745)n7:0.0331058,((KBS0714_MOLHKGIG_00609:0.0183647,((SA211_MHAAABBN_00350:0.00684395,SA211_MHAAABBN_00789:0.011358)n11:0.626382,SA211_MHAAABBN_01769:0.026688)n10:0.00296533)n9:0.131644,TT9_LFPAFLNI_02005:0.716908)n8:0.0386524)n6:0.0312093)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000019_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((KD337_16_NAFOICDF_02288:0.112164,((KBS0714_MOLHKGIG_00542:0.00421984,TT9_LFPAFLNI_00545:0.00450616)n4:0.0260324,AS2_ACLBLIBL_02407:0.0555526)n3:0.0123384)n2:0.0246424,SA211_MHAAABBN_00267:0.0781722)n1:0.224472,(KD337_16_NAFOICDF_00880:0.0583825,((SA211_MHAAABBN_01611:0.00126295,TT9_LFPAFLNI_01835:9.905e-05)n7:0.00541692,KBS0714_MOLHKGIG_01915:0.00437708)n6:0.0775845)n5:0.224472)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000021_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((TT9_LFPAFLNI_00587:1.16961,AS2_ACLBLIBL_01839:0.733255)n2:0.242328,KD337_16_NAFOICDF_02437:0.917303)n1:0.394595,(AS2_ACLBLIBL_00439:0.267874,(KD337_16_NAFOICDF_00392:0.167479,(TT9_LFPAFLNI_02238:0.00856487,(KBS0714_MOLHKGIG_02297:0.0139286,SA211_MHAAABBN_01990:0.0191604)n6:0.0110881)n5:0.174541)n4:0.0700054)n3:0.394595)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000022_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_00454:0.0314157,((KD337_16_NAFOICDF_00440:0.814397,KD337_16_NAFOICDF_00650:1.16394)n3:0.371866,KD337_16_NAFOICDF_01865:0.374875)n2:0.318328)n1:0.0138621,(TT9_LFPAFLNI_02170:3.2581e-06,(KBS0714_MOLHKGIG_02238:3.2581e-06,(SA211_MHAAABBN_01940:0.0217247,AS2_ACLBLIBL_00513:0.112772)n6:0.018431)n5:0.00991827)n4:0.0138621)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000030_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_02189:0.0231696,(((TT9_LFPAFLNI_00604:0,SA211_MHAAABBN_00372:0)n3:0.00116114,((AS2_ACLBLIBL_00393:0.0420804,AS2_ACLBLIBL_00389:0.0009096)n5:0.0170603,AS2_ACLBLIBL_00410:0.00046546)n4:0.00100654)n2:0.00165752,KBS0714_MOLHKGIG_00627:0.00758284)n1:0.0231696)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000032_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_01001:0.0799461,((TT9_LFPAFLNI_01729:0.00437206,((AS2_ACLBLIBL_02643:0.734288,AS2_ACLBLIBL_00398:0.210508)n4:0.0726223,AS2_ACLBLIBL_01066:0.00522535)n3:0.000580594)n2:0.0182331,(SA211_MHAAABBN_01505:5e-07,KBS0714_MOLHKGIG_01808:5e-07)n5:0.0448559)n1:0.0863631)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000038_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00712:0.0965581,(AS2_ACLBLIBL_00620:0.259329,(((KBS0714_MOLHKGIG_01288:0,SA211_MHAAABBN_01007:0)n4:0.00914119,TT9_LFPAFLNI_01246:0.0104838)n3:0.13524,(TT9_LFPAFLNI_01556:0.00237081,KBS0714_MOLHKGIG_01627:0.0172502)n5:0.245857)n2:0.0273174)n1:0.125373)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000053_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((SA211_MHAAABBN_00479:0.0104403,(KBS0714_MOLHKGIG_00749:0.00959819,TT9_LFPAFLNI_00713:0.0336408)n3:0.0158682)n2:0.408205,AS2_ACLBLIBL_02181:0.540981)n1:0.139568,(KD337_16_NAFOICDF_02076:0.730871,(KD337_16_NAFOICDF_00685:0.778474,KD337_16_NAFOICDF_00686:0.949805)n5:0.400742)n4:0.139568)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000055_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((KD337_16_NAFOICDF_00418:0.0461942,KBS0714_MOLHKGIG_02261:0.0358708)n2:0.00460275,TT9_LFPAFLNI_02192:0.0110168)n1:0.0492976,(KD337_16_NAFOICDF_00422:1.64473,((TT9_LFPAFLNI_02178:0.00688531,KBS0714_MOLHKGIG_02246:2.05933e-06)n5:0.00196763,SA211_MHAAABBN_01948:0.0118519)n4:0.198267)n3:0.0492976)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000059_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((((KBS0714_MOLHKGIG_00297:0.00955669,TT9_LFPAFLNI_00304:0.0103553)n3:0.0312829,SA211_MHAAABBN_00005:0.0238536)n2:0.0410017,(KD337_16_NAFOICDF_01222:2.73086,KD337_16_NAFOICDF_00035:0.16707)n4:0.0185633)n1:0.0148313,AS2_ACLBLIBL_00057:0.0608747)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000070_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00115:0.0984021,((TT9_LFPAFLNI_00224:0.00279487,(SA211_MHAAABBN_02236:0,KBS0714_MOLHKGIG_00223:0)n3:0.00430213)n2:0.134983,(AS2_ACLBLIBL_00588:1.38933,AS2_ACLBLIBL_00157:0.106272)n4:0.011808)n1:0.0479959)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000071_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_02164:0.0662499,(((KBS0714_MOLHKGIG_00656:1.7505e-06,TT9_LFPAFLNI_00626:0.00215956)n3:0.00087831,SA211_MHAAABBN_00393:1.7505e-06)n2:0.0556023,(AS2_ACLBLIBL_00162:1.50019,AS2_ACLBLIBL_02307:0.0714318)n4:0.00793687)n1:0.0467118)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000073_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00321:0.362825,((KBS0714_MOLHKGIG_00216:-0,(SA211_MHAAABBN_02209:0,TT9_LFPAFLNI_00216:0)n3:0)n2:0.156687,(AS2_ACLBLIBL_02206:0.526506,AS2_ACLBLIBL_00167:0.0426668)n4:0.00474076)n1:0.601676)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000078_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_02454:0.0310766,((KBS0714_MOLHKGIG_00366:0.00590789,(TT9_LFPAFLNI_00373:0.00271935,SA211_MHAAABBN_00082:0.00135165)n3:0.00225911)n2:0.0208489,(AS2_ACLBLIBL_00193:1.08928,AS2_ACLBLIBL_02595:0.0352882)n4:0.00392091)n1:0.0423903)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000079_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00149:1.54944e-06,((KBS0714_MOLHKGIG_00198:1.54944e-06,AS2_ACLBLIBL_00197:0.516922)n2:0.0759002,(TT9_LFPAFLNI_00198:1.54944e-06,(SA211_MHAAABBN_02194:1.54944e-06,SA211_MHAAABBN_02026:1.02757)n4:0.114175)n3:0.0750319)n1:1.54944e-06)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000085_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_01503:0.159577,((SA211_MHAAABBN_02062:0.00175419,(KBS0714_MOLHKGIG_00049:2.1e-07,TT9_LFPAFLNI_00044:0.00919579)n3:0.00250281)n2:0.0988373,(AS2_ACLBLIBL_01608:0.15228,AS2_ACLBLIBL_00354:0.092443)n4:0.0102714)n1:0.368105)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000086_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00353:0.218431,(SA211_MHAAABBN_02043:0.0188413,(TT9_LFPAFLNI_00025:0.0109923,(AS2_ACLBLIBL_00370:0.240568,(AS2_ACLBLIBL_00371:0.4045,KBS0714_MOLHKGIG_00025:0.00328129)n4:0.0156469)n3:0.00173855)n2:0.00733491)n1:0.0856916)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000102_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00595:0.0828894,(((SA211_MHAAABBN_01805:0,KBS0714_MOLHKGIG_02098:0)n3:0.00429658,TT9_LFPAFLNI_02038:0.00060442)n2:0.0281124,(AS2_ACLBLIBL_01500:3.11274,AS2_ACLBLIBL_00681:0.0416275)n4:0.00462528)n1:0.0584644)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000121_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_01806:2.00989,KD337_16_NAFOICDF_01022:0.155593)n1:0.0223631,(AS2_ACLBLIBL_01098:0.0887182,((SA211_MHAAABBN_01486:0.0177675,KBS0714_MOLHKGIG_01779:0.0099485)n4:0.00853425,TT9_LFPAFLNI_01708:0.0202282)n3:0.1192)n2:0.0223631)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000122_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_01121:0.212282,KD337_16_NAFOICDF_00038:1.03458)n1:0.0742982,(AS2_ACLBLIBL_01191:0.102467,((SA211_MHAAABBN_01391:0,TT9_LFPAFLNI_01616:0)n4:0.0158405,KBS0714_MOLHKGIG_01687:0.0072955)n3:0.0541875)n2:0.0742982)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000125_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_02311:0.00247425,(KBS0714_MOLHKGIG_00521:0.0480745,((TT9_LFPAFLNI_00521:2.56179e-06,(AS2_ACLBLIBL_02428:0.00382862,AS2_ACLBLIBL_01219:2.22581)n4:0.247312)n3:0.0674521,SA211_MHAAABBN_00243:2.56179e-06)n2:0.0200599)n1:0.00247425)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000127_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_02461:0.0230768,(((SA211_MHAAABBN_00075:0.00437356,KBS0714_MOLHKGIG_00359:0.00218344)n3:0.00178681,TT9_LFPAFLNI_00366:0.0108177)n2:0.00641581,(AS2_ACLBLIBL_02602:0.00604444,AS2_ACLBLIBL_01252:1.02832)n4:0.00440931)n1:0.0230768)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000137_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_01254:0.162563,(TT9_LFPAFLNI_01490:1.85405e-06,(SA211_MHAAABBN_01273:0.0203882,(AS2_ACLBLIBL_02268:0.974164,(AS2_ACLBLIBL_01363:0.138525,KBS0714_MOLHKGIG_01563:1.85405e-06)n4:0.0459727)n3:0.00510808)n2:0.0407583)n1:0.524179)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000154_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_01764:0.404326,(TT9_LFPAFLNI_00955:1.55265e-06,((KBS0714_MOLHKGIG_01012:0,SA211_MHAAABBN_00726:0)n3:0.0234255,(AS2_ACLBLIBL_01876:0.614572,AS2_ACLBLIBL_01877:0.335014)n4:0.0372237)n2:0.0488932)n1:0.108733)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000158_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_02063:0.145926,KD337_16_NAFOICDF_00528:1.87346)n1:0.0201981,(AS2_ACLBLIBL_02168:0.16063,(TT9_LFPAFLNI_00726:0.00787031,(KBS0714_MOLHKGIG_00762:0.00960494,SA211_MHAAABBN_00492:0.00380006)n4:0.00991719)n3:0.22303)n2:0.0201981)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000167_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((AS2_ACLBLIBL_02509:0.0405486,(KD337_16_NAFOICDF_00683:0.879254,KD337_16_NAFOICDF_02380:0.044158)n2:0.00490644)n1:0.00820247,(TT9_LFPAFLNI_00451:0.00279306,(SA211_MHAAABBN_00169:0.00144544,KBS0714_MOLHKGIG_00448:1.0091e-06)n4:0.00024344)n3:0.0277779)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000172_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_00544:0.233251,KD337_16_NAFOICDF_00702:0.216236)n1:0.0398274,((TT9_LFPAFLNI_02007:0.0229808,(SA211_MHAAABBN_01774:0.0629467,SA211_MHAAABBN_00326:0.0169211)n4:0.00188012)n3:0.287847,KBS0714_MOLHKGIG_00614:0.0369522)n2:0.0398274)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000175_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00006:0.0870016,(AS2_ACLBLIBL_00005:0.0750158,((KBS0714_MOLHKGIG_00330:0.00209225,TT9_LFPAFLNI_00337:0.00902075)n3:0.00031875,SA211_MHAAABBN_00046:0.00379275)n2:0.0464608)n1:0.0870016)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000179_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00009:0.14253,((TT9_LFPAFLNI_00331:0.0205414,(SA211_MHAAABBN_00039:0.0110009,KBS0714_MOLHKGIG_00324:0.00935607)n3:0.00286821)n2:0.078655,AS2_ACLBLIBL_00013:0.124835)n1:0.14253)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000182_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00012:0.0325952,(((TT9_LFPAFLNI_00328:0,SA211_MHAAABBN_00036:0)n3:0,KBS0714_MOLHKGIG_00321:0)n2:0.0318955,AS2_ACLBLIBL_00016:0.0091615)n1:0.0325952)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000194_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00028:0.0935057,((KBS0714_MOLHKGIG_00305:0.0351311,(SA211_MHAAABBN_00020:0,TT9_LFPAFLNI_00312:0)n3:0.0002429)n2:0.0735092,AS2_ACLBLIBL_00032:0.0575525)n1:0.0935057)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000197_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00032:0.0765287,((SA211_MHAAABBN_00008:0.00046202,(KBS0714_MOLHKGIG_00300:0.00063545,TT9_LFPAFLNI_00307:0.00525455)n3:0.00279012)n2:0.0337868,AS2_ACLBLIBL_00054:0.0355087)n1:0.0765287)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000198_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00033:0.0672394,((TT9_LFPAFLNI_00306:0.00492825,(SA211_MHAAABBN_00007:0.005347,KBS0714_MOLHKGIG_00299:0.001353)n3:0.00072225)n2:0.0301592,AS2_ACLBLIBL_00055:0.0523803)n1:0.0672394)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000200_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00036:0.0144919,(((TT9_LFPAFLNI_00303:2.963e-05,SA211_MHAAABBN_00004:0.00196638)n3:0.00385288,KBS0714_MOLHKGIG_00296:0.00577812)n2:0.00611387,AS2_ACLBLIBL_00058:0.0431371)n1:0.0144919)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000203_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00041:0.0377855,(AS2_ACLBLIBL_00062:0.022196,(KBS0714_MOLHKGIG_00292:0.0023475,(TT9_LFPAFLNI_00299:0,SA211_MHAAABBN_02315:0)n3:0.0023475)n2:0.0482455)n1:0.0377855)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000210_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00059:0.101023,((KBS0714_MOLHKGIG_00280:0.00261544,SA211_MHAAABBN_02295:0.00714056)n2:0.00841929,(AS2_ACLBLIBL_00073:0.0062285,TT9_LFPAFLNI_00279:0.0306765)n3:0.00648511)n1:0.101023)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000211_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00060:0.0386977,(((AS2_ACLBLIBL_00075:0.00296538,KBS0714_MOLHKGIG_00278:8.01464e-08)n3:0.00021437,TT9_LFPAFLNI_00277:8.01464e-08)n2:0.00021438,SA211_MHAAABBN_02293:8.01464e-08)n1:0.0386977)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000213_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00063:0.105186,(AS2_ACLBLIBL_00080:0.332989,((TT9_LFPAFLNI_00273:0.00078737,SA211_MHAAABBN_02290:0.00297563)n3:0.00217191,KBS0714_MOLHKGIG_00275:0.0014817)n2:0.244127)n1:0.105186)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000225_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00080:0.236944,(((KBS0714_MOLHKGIG_00257:0.00276379,TT9_LFPAFLNI_00256:0.00214821)n3:0.00615419,SA211_MHAAABBN_02271:0.00456628)n2:0.105722,AS2_ACLBLIBL_00112:0.0606843)n1:0.236944)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000226_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00081:0.0706939,(AS2_ACLBLIBL_00113:0.0378962,(KBS0714_MOLHKGIG_00256:0.00194757,(SA211_MHAAABBN_02270:0.00169869,TT9_LFPAFLNI_00255:0.00359631)n3:0.00103343)n2:0.03238)n1:0.0706939)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000236_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00098:0.163122,((KBS0714_MOLHKGIG_00238:0.00727525,(TT9_LFPAFLNI_00239:0,SA211_MHAAABBN_02251:0)n3:0.00420075)n2:0.0123398,AS2_ACLBLIBL_00133:0.0291908)n1:0.163122)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000243_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((KD337_16_NAFOICDF_01759:0.526097,AS2_ACLBLIBL_00149:0.987777)n1:0.0319713,(AS2_ACLBLIBL_01863:0.686605,(KD337_16_NAFOICDF_01752:1.08251,KD337_16_NAFOICDF_01765:1.02099)n3:0.113443)n2:0.0556556)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000245_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00108:0.0309724,(AS2_ACLBLIBL_00151:0.124915,((SA211_MHAAABBN_02243:0.00069437,KBS0714_MOLHKGIG_00230:0.00185763)n3:0.00465487,TT9_LFPAFLNI_00231:0.00458412)n2:0.0631744)n1:0.0309724)n0;
experiments/bioagent_bench/runs/scale_1000/comparative-genomics_20260515_135806/orthofinder_output/Results_May15/Resolved_Gene_Trees/OG0000257_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (KD337_16_NAFOICDF_00124:0.0438012,((TT9_LFPAFLNI_00211:0.003009,(KBS0714_MOLHKGIG_00211:5e-07,SA211_MHAAABBN_02204:5e-07)n3:0.0029325)n2:0.014421,AS2_ACLBLIBL_00175:0.0155675)n1:0.0438012)n0;