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Beyond_Prompt-based_Retrieval

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  1. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000002_tree.txt +1 -0
  2. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000004_tree.txt +1 -0
  3. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000005_tree.txt +1 -0
  4. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000009_tree.txt +1 -0
  5. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000011_tree.txt +1 -0
  6. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000013_tree.txt +1 -0
  7. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000016_tree.txt +1 -0
  8. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000018_tree.txt +1 -0
  9. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000019_tree.txt +1 -0
  10. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000021_tree.txt +1 -0
  11. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000022_tree.txt +1 -0
  12. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000023_tree.txt +1 -0
  13. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000030_tree.txt +1 -0
  14. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000032_tree.txt +1 -0
  15. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000035_tree.txt +1 -0
  16. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000036_tree.txt +1 -0
  17. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000038_tree.txt +1 -0
  18. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000039_tree.txt +1 -0
  19. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000053_tree.txt +1 -0
  20. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000055_tree.txt +1 -0
  21. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000056_tree.txt +1 -0
  22. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000059_tree.txt +1 -0
  23. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000061_tree.txt +1 -0
  24. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000062_tree.txt +1 -0
  25. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000064_tree.txt +1 -0
  26. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000068_tree.txt +1 -0
  27. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000070_tree.txt +1 -0
  28. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000071_tree.txt +1 -0
  29. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000073_tree.txt +1 -0
  30. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000075_tree.txt +1 -0
  31. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000079_tree.txt +1 -0
  32. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000085_tree.txt +1 -0
  33. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000086_tree.txt +1 -0
  34. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000093_tree.txt +1 -0
  35. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000095_tree.txt +1 -0
  36. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000096_tree.txt +1 -0
  37. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000101_tree.txt +1 -0
  38. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000102_tree.txt +1 -0
  39. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000103_tree.txt +1 -0
  40. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000121_tree.txt +1 -0
  41. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000122_tree.txt +1 -0
  42. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000125_tree.txt +1 -0
  43. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000126_tree.txt +1 -0
  44. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000127_tree.txt +1 -0
  45. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000129_tree.txt +1 -0
  46. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000133_tree.txt +1 -0
  47. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000137_tree.txt +1 -0
  48. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000140_tree.txt +1 -0
  49. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000147_tree.txt +1 -0
  50. Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000153_tree.txt +1 -0
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000002_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((((GCF_005280335_1_GCF_005280335.1_02630:0,GCF_005280335_1_GCF_005280335.1_02348:0)n3:0.0265228,(GCF_003691675_1_GCF_003691675.1_01117:0.00997735,(GCF_003691675_1_GCF_003691675.1_02266:2.17225e-07,(GCF_003691675_1_GCF_003691675.1_01328:2.17225e-07,GCF_003691675_1_GCF_003691675.1_00320:2.17225e-07)n6:2.17225e-07)n5:2.17225e-07)n4:2.17225e-07)n2:1.277e-05,(GCF_002008305_4_GCF_002008305.4_01387:2.17225e-07,(GCF_003691675_1_GCF_003691675.1_00787:0.00123687,((GCF_003691675_1_GCF_003691675.1_01659:0.00804765,((GCF_023573625_1_GCF_023573625.1_00113:0,GCF_023573625_1_GCF_023573625.1_01883:0)n12:0.00507023,(GCF_020097155_1_GCF_020097155.1_00316:0.0496737,(GCF_020097155_1_GCF_020097155.1_00621:0,GCF_020097155_1_GCF_020097155.1_00626:0)n14:0.00225519)n13:0.000250577)n11:0.00882327)n10:0.00487737,((GCF_003691675_1_GCF_003691675.1_00332:0,GCF_020097155_1_GCF_020097155.1_02231:0)n16:0.00696494,GCF_023573625_1_GCF_023573625.1_01019:0.00622306)n15:0.0154368)n9:0.00526825)n8:0.00195477)n7:0.000217197)n1:0.00186499,(((GCF_005280335_1_GCF_005280335.1_01313:0,GCF_005280335_1_GCF_005280335.1_01318:0)n19:0.00353253,GCF_005280335_1_GCF_005280335.1_01280:0.00212247)n18:0.026897,((GCF_023573625_1_GCF_023573625.1_01540:0.00040598,(GCF_002008305_4_GCF_002008305.4_01069:0.020798,(GCF_005280335_1_GCF_005280335.1_02332:2.17225e-07,(GCF_005280335_1_GCF_005280335.1_00757:2.17225e-07,GCF_005280335_1_GCF_005280335.1_01303:2.17225e-07)n24:2.17225e-07)n23:2.17225e-07)n22:2.603e-05)n21:0.00161499,((GCF_020097155_1_GCF_020097155.1_01795:0,GCF_020097155_1_GCF_020097155.1_01837:0)n26:0,GCF_020097155_1_GCF_020097155.1_02208:0)n25:0.0040327)n20:0.00138189)n17:0.00186499)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000004_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00116:2.54473e-06,((((GCF_005280335_1_GCF_005280335.1_00895:0,GCF_005280335_1_GCF_005280335.1_00228:0)n5:0.261294,GCF_003691675_1_GCF_003691675.1_01012:0.0329093)n4:0.0941234,(GCF_005280335_1_GCF_005280335.1_02100:0.00437312,GCF_003691675_1_GCF_003691675.1_00355:2.54473e-06)n6:2.54473e-06)n3:9.74e-06,(GCF_002008305_4_GCF_002008305.4_01393:2.54473e-06,GCF_002008305_4_GCF_002008305.4_00376:2.54473e-06)n7:2.54473e-06)n2:9.74e-06)n1:4.87e-06,(((GCF_023573625_1_GCF_023573625.1_01880:0,(GCF_023573625_1_GCF_023573625.1_01547:0,GCF_023573625_1_GCF_023573625.1_01549:0)n11:0)n10:0.00038011,(GCF_005280335_1_GCF_005280335.1_01506:2.54473e-06,(GCF_002008305_4_GCF_002008305.4_02277:2.54473e-06,(GCF_003691675_1_GCF_003691675.1_01746:2.54473e-06,(GCF_003691675_1_GCF_003691675.1_01125:2.54473e-06,(GCF_003691675_1_GCF_003691675.1_02016:2.54473e-06,(GCF_005280335_1_GCF_005280335.1_00643:2.54473e-06,((GCF_005280335_1_GCF_005280335.1_00899:0.586123,GCF_020097155_1_GCF_020097155.1_01829:0.607318)n19:0.356428,(GCF_005280335_1_GCF_005280335.1_00229:2.54473e-06,(GCF_003691675_1_GCF_003691675.1_01015:0.0885647,GCF_002008305_4_GCF_002008305.4_02069:0.00598831)n21:0.118524)n20:0.351008)n18:0.0540488)n17:9.3951e-05)n16:9.3951e-06)n15:9.3951e-07)n14:9.3951e-08)n13:1.0439e-08)n12:0.00319271)n9:0.00074121,((GCF_003691675_1_GCF_003691675.1_01819:2.54473e-06,GCF_023573625_1_GCF_023573625.1_01974:2.54473e-06)n23:2.54473e-06,GCF_002008305_4_GCF_002008305.4_02112:2.54473e-06)n22:2.54473e-06)n8:4.87e-06)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000005_tree.txt ADDED
@@ -0,0 +1 @@
 
 
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+ (GCF_003691675_1_GCF_003691675.1_01778:0.481639,(GCF_020097155_1_GCF_020097155.1_00678:1.30712,(GCF_020097155_1_GCF_020097155.1_00227:0.484699,((GCF_005280335_1_GCF_005280335.1_02274:0.0197706,((GCF_020097155_1_GCF_020097155.1_00448:0.024019,GCF_020097155_1_GCF_020097155.1_02206:0.045165)n6:0.0519192,(((((GCF_020097155_1_GCF_020097155.1_00751:0,GCF_020097155_1_GCF_020097155.1_01794:0)n11:0.00010659,(GCF_020097155_1_GCF_020097155.1_00631:0,GCF_020097155_1_GCF_020097155.1_02162:0)n12:0.00285841)n10:0.00068751,GCF_020097155_1_GCF_020097155.1_00627:0.00079899)n9:0.00179948,(((GCF_020097155_1_GCF_020097155.1_00226:8.503e-05,GCF_020097155_1_GCF_020097155.1_01835:0.00216597)n15:0.00412963,GCF_020097155_1_GCF_020097155.1_00312:0.00488987)n14:0.00407,GCF_020097155_1_GCF_020097155.1_01890:0.00760725)n13:0.00215033)n8:0.00719922,(GCF_020097155_1_GCF_020097155.1_00315:0,GCF_020097155_1_GCF_020097155.1_00645:0)n16:0.0276021)n7:0.000678897)n5:7.5433e-05)n4:0.042145,(GCF_005280335_1_GCF_005280335.1_01282:0.0551577,((GCF_020097155_1_GCF_020097155.1_00641:0.0523848,(GCF_020097155_1_GCF_020097155.1_01361:0.0470863,GCF_020097155_1_GCF_020097155.1_01832:0.172567)n20:0.0189387)n19:0.0548108,(GCF_020097155_1_GCF_020097155.1_00652:0.0381747,GCF_020097155_1_GCF_020097155.1_01820:0.0480273)n21:0.00871096)n18:0.000967885)n17:0.0461351)n3:0.364143)n2:0.895467)n1:0.481639)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000009_tree.txt ADDED
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+ ((GCF_023573625_1_GCF_023573625.1_01157:3.37914e-07,((GCF_002008305_4_GCF_002008305.4_02228:0.118103,GCF_002008305_4_GCF_002008305.4_01400:3.37914e-07)n3:5.49e-06,(GCF_003691675_1_GCF_003691675.1_01393:3.37914e-07,GCF_003691675_1_GCF_003691675.1_00091:3.37914e-07)n4:3.37914e-07)n2:5.49e-06)n1:2.745e-06,(GCF_003691675_1_GCF_003691675.1_00344:3.37914e-07,(GCF_023573625_1_GCF_023573625.1_02163:3.37914e-07,((GCF_003691675_1_GCF_003691675.1_02283:3.37914e-07,((GCF_002008305_4_GCF_002008305.4_01503:0.219835,GCF_023573625_1_GCF_023573625.1_01350:3.37914e-07)n10:5.49e-06,(GCF_002008305_4_GCF_002008305.4_00712:3.37914e-07,GCF_023573625_1_GCF_023573625.1_00607:3.37914e-07)n11:3.37914e-07)n9:5.49e-06)n8:5.49e-06,(GCF_023573625_1_GCF_023573625.1_01017:3.37914e-07,GCF_003691675_1_GCF_003691675.1_01014:3.37914e-07)n12:3.37914e-07)n7:4.941e-06)n6:5.49e-07)n5:5.49e-06)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000011_tree.txt ADDED
@@ -0,0 +1 @@
 
 
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+ ((((GCF_023573625_1_GCF_023573625.1_02005:0.716908,(GCF_003691675_1_GCF_003691675.1_01769:0.0296533,(GCF_003691675_1_GCF_003691675.1_00789:0.011358,GCF_003691675_1_GCF_003691675.1_00350:0.00684395)n5:0.563744)n4:0.0626382)n3:0.0292449,GCF_002008305_4_GCF_002008305.4_00609:0.0183647)n2:0.0386524,(GCF_005280335_1_GCF_005280335.1_00727:0.0449685,GCF_005280335_1_GCF_005280335.1_02366:0.0709745)n6:0.0331058)n1:0.0312093,((GCF_023573625_1_GCF_023573625.1_02002:0.0440971,(((GCF_003691675_1_GCF_003691675.1_00339:0,GCF_003691675_1_GCF_003691675.1_01779:0)n11:0,GCF_002008305_4_GCF_002008305.4_00616:0)n10:0.0106229,GCF_002008305_4_GCF_002008305.4_02074:0.0162467)n9:0.00180519)n8:0.132574,GCF_005280335_1_GCF_005280335.1_00719:0.0109301)n7:0.0312093)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000013_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_005280335_1_GCF_005280335.1_02496:0.295843,GCF_005280335_1_GCF_005280335.1_00706:0.475675)n2:0.36602,(GCF_003691675_1_GCF_003691675.1_00341:0.125681,(GCF_020097155_1_GCF_020097155.1_01887:0.0313903,(GCF_023573625_1_GCF_023573625.1_01544:0.310013,GCF_023573625_1_GCF_023573625.1_00898:0.0181851)n5:0.00202057)n4:0.115146)n3:0.0525349)n1:0.0442475,((GCF_005280335_1_GCF_005280335.1_02276:2.1735e-06,((GCF_005280335_1_GCF_005280335.1_02495:0.160142,GCF_005280335_1_GCF_005280335.1_02636:0.0164108)n9:0.0877972,GCF_005280335_1_GCF_005280335.1_02615:2.1735e-06)n8:0.0316281)n7:0.0419219,GCF_003691675_1_GCF_003691675.1_01765:0.00214371)n6:0.0442475)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000016_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_005280335_1_GCF_005280335.1_01897:0.0339341,((GCF_002008305_4_GCF_002008305.4_00992:0.0125064,GCF_020097155_1_GCF_020097155.1_01844:0.0118856)n3:0.00231212,(GCF_023573625_1_GCF_023573625.1_00935:0.00377569,GCF_003691675_1_GCF_003691675.1_00706:0.00465431)n4:0.00501738)n2:0.00301887)n1:0.00535712,(((GCF_003691675_1_GCF_003691675.1_01478:0,GCF_002008305_4_GCF_002008305.4_01771:0)n7:0.00351475,GCF_023573625_1_GCF_023573625.1_01700:0.00446625)n6:0.0128569,(GCF_005280335_1_GCF_005280335.1_01106:0.0304285,GCF_020097155_1_GCF_020097155.1_01032:0.0938865)n8:0.00598188)n5:0.00535712)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000018_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01559:0.014803,(GCF_003691675_1_GCF_003691675.1_01269:0.0153261,GCF_023573625_1_GCF_023573625.1_01486:0.00921789)n2:0.00776337)n1:0.181754,(((GCF_020097155_1_GCF_020097155.1_01147:0.53626,GCF_005280335_1_GCF_005280335.1_01236:0.222989)n5:0.27643,(GCF_002008305_4_GCF_002008305.4_01658:0.00021408,GCF_002008305_4_GCF_002008305.4_01845:0.581811)n6:0.0646457)n4:0.141314,(GCF_023573625_1_GCF_023573625.1_01588:0.0062415,GCF_003691675_1_GCF_003691675.1_01363:2.24875e-06)n7:0.00986642)n3:0.181754)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000019_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((((GCF_005280335_1_GCF_005280335.1_02275:0.00604717,GCF_005280335_1_GCF_005280335.1_02634:8.83441e-07)n4:0.0115305,(GCF_005280335_1_GCF_005280335.1_02616:0,GCF_005280335_1_GCF_005280335.1_02497:0)n5:0.0024707)n3:0.017677,GCF_003691675_1_GCF_003691675.1_01766:0.049677)n2:0.140935,(GCF_023573625_1_GCF_023573625.1_00899:0.0680276,GCF_020097155_1_GCF_020097155.1_01886:0.0102924)n6:0.187902)n1:0.0237485,(GCF_003691675_1_GCF_003691675.1_00342:0.126053,GCF_023573625_1_GCF_023573625.1_01543:0.216031)n7:0.0237485)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000021_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00572:2.09768e-06,((GCF_002008305_4_GCF_002008305.4_00571:0.0101993,GCF_003691675_1_GCF_003691675.1_00295:0.00689172)n3:0.130018,(GCF_002008305_4_GCF_002008305.4_00570:0.0291583,GCF_003691675_1_GCF_003691675.1_00294:0.00112167)n4:0.251294)n2:0.0279216)n1:0.135402,(GCF_020097155_1_GCF_020097155.1_02254:0.433067,(GCF_005280335_1_GCF_005280335.1_02374:0.538221,GCF_005280335_1_GCF_005280335.1_02375:0.298736)n6:0.0331928)n5:0.216609)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000022_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_01247:0.00251147,(GCF_003691675_1_GCF_003691675.1_01008:0,GCF_002008305_4_GCF_002008305.4_01289:0)n2:0.00094753)n1:0.0416592,(((GCF_020097155_1_GCF_020097155.1_02196:0.00219647,GCF_005280335_1_GCF_005280335.1_00405:0.00492553)n5:0.0102903,GCF_023573625_1_GCF_023573625.1_00598:0.00369116)n4:0.00751134,(GCF_002008305_4_GCF_002008305.4_00633:0.0137077,GCF_020097155_1_GCF_020097155.1_00711:0.0675873)n6:0.0075097)n3:0.0416592)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000023_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_005280335_1_GCF_005280335.1_00513:0.112772,GCF_003691675_1_GCF_003691675.1_01940:0.0217247)n1:0.00921548,((GCF_023573625_1_GCF_023573625.1_02170:3.2581e-06,(((GCF_020097155_1_GCF_020097155.1_00440:0.814397,GCF_020097155_1_GCF_020097155.1_00650:1.16394)n6:0.371866,GCF_020097155_1_GCF_020097155.1_01865:0.374875)n5:0.318328,GCF_020097155_1_GCF_020097155.1_00454:0.0314157)n4:0.0277241)n3:0.00991827,GCF_002008305_4_GCF_002008305.4_02238:3.2581e-06)n2:0.00921548)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000030_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_00360:3.70302e-06,((GCF_005280335_1_GCF_005280335.1_02334:0.00266569,GCF_002008305_4_GCF_002008305.4_00169:0.00704631)n3:0.00381069,((GCF_005280335_1_GCF_005280335.1_02217:0.857785,GCF_005280335_1_GCF_005280335.1_00191:1.29451)n5:0.312949,GCF_005280335_1_GCF_005280335.1_00171:0.525499)n4:0.626918)n2:0.0696576)n1:0.00056303,GCF_023573625_1_GCF_023573625.1_02010:0.00188381)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000032_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_023573625_1_GCF_023573625.1_00245:0.0145651,GCF_005280335_1_GCF_005280335.1_00124:0.0115879)n2:0.0115397,(((GCF_003691675_1_GCF_003691675.1_00096:0.64215,GCF_003691675_1_GCF_003691675.1_00100:0.960251)n5:0.334581,GCF_020097155_1_GCF_020097155.1_00093:0.184839)n4:0.173129,GCF_003691675_1_GCF_003691675.1_02257:0.00139753)n3:0.000155281)n1:0.00070703,GCF_002008305_4_GCF_002008305.4_00245:0.00111569)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000035_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00604:0,GCF_003691675_1_GCF_003691675.1_00372:0)n1:0.00058057,((GCF_002008305_4_GCF_002008305.4_00627:0.00758284,GCF_020097155_1_GCF_020097155.1_02189:0.0463392)n3:0.00165752,((GCF_005280335_1_GCF_005280335.1_00389:0.0009096,GCF_005280335_1_GCF_005280335.1_00393:0.0420804)n5:0.0170603,GCF_005280335_1_GCF_005280335.1_00410:0.00046546)n4:0.00100654)n2:0.00058057)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000036_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (GCF_002008305_4_GCF_002008305.4_00631:0,(GCF_023573625_1_GCF_023573625.1_00600:0,((GCF_005280335_1_GCF_005280335.1_00403:0.014339,GCF_020097155_1_GCF_020097155.1_02198:0.012672)n3:0.0128564,((GCF_005280335_1_GCF_005280335.1_01253:0.943844,GCF_005280335_1_GCF_005280335.1_01330:1.37119)n5:0.145467,GCF_020097155_1_GCF_020097155.1_00451:1.31048)n4:0.869025)n2:0.0258181)n1:0)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000038_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_01485:0.00726013,((GCF_020097155_1_GCF_020097155.1_01023:0.0598848,(GCF_002008305_4_GCF_002008305.4_00836:0.444817,GCF_002008305_4_GCF_002008305.4_00837:0.131953)n4:0.665023)n3:0.00863038,(GCF_002008305_4_GCF_002008305.4_01778:0.00569369,GCF_023573625_1_GCF_023573625.1_01707:0.00439331)n5:0.00159828)n2:0.000177587)n1:0.0301199,GCF_005280335_1_GCF_005280335.1_01099:0.0790576)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000039_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_005280335_1_GCF_005280335.1_02045:1.0626,((GCF_002008305_4_GCF_002008305.4_00894:0.0261265,GCF_003691675_1_GCF_003691675.1_00616:0.0431745)n3:0.694971,(GCF_002008305_4_GCF_002008305.4_00884:0.0113939,GCF_003691675_1_GCF_003691675.1_00606:0.00290412)n4:0.678113)n2:0.0753458)n1:0.17617,(GCF_023573625_1_GCF_023573625.1_00845:0.860434,GCF_020097155_1_GCF_020097155.1_01944:0.589537)n5:0.477201)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000053_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (GCF_003691675_1_GCF_003691675.1_01948:0.0118519,(((GCF_002008305_4_GCF_002008305.4_02261:0.0358708,GCF_020097155_1_GCF_020097155.1_00418:0.0461942)n3:0.00460275,(GCF_023573625_1_GCF_023573625.1_02192:0.0110168,GCF_020097155_1_GCF_020097155.1_00422:1.48026)n4:0.164473)n2:0.0991336,(GCF_023573625_1_GCF_023573625.1_02178:0.00688531,GCF_002008305_4_GCF_002008305.4_02246:1.8616e-06)n5:0.00177087)n1:0.000196763)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000055_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (GCF_003691675_1_GCF_003691675.1_01696:0.100453,((GCF_023573625_1_GCF_023573625.1_00735:0.264599,(GCF_005280335_1_GCF_005280335.1_01010:0.884884,(GCF_020097155_1_GCF_020097155.1_00870:0.790182,GCF_020097155_1_GCF_020097155.1_00943:0.512508)n4:0.0569454)n3:0.0265043)n2:0.169595,(GCF_020097155_1_GCF_020097155.1_00792:0.125211,GCF_005280335_1_GCF_005280335.1_00855:0.0607083)n5:0.00674537)n1:0.100453)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000056_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00025:0.0109923,(GCF_005280335_1_GCF_005280335.1_00371:0.4045,(GCF_003691675_1_GCF_003691675.1_02043:0.0188413,(GCF_020097155_1_GCF_020097155.1_00353:0.436862,GCF_005280335_1_GCF_005280335.1_00370:0.240568)n4:0.0856916)n3:0.00660142)n2:0.000733491)n1:0.00869274,GCF_002008305_4_GCF_002008305.4_00025:0.00328129)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000059_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00048:0.0131357,GCF_002008305_4_GCF_002008305.4_00053:0.0130953)n1:0.0243654,(GCF_003691675_1_GCF_003691675.1_02066:0.0100957,(GCF_005280335_1_GCF_005280335.1_00346:0.0188688,(GCF_020097155_1_GCF_020097155.1_00293:0.183162,GCF_020097155_1_GCF_020097155.1_00284:0.0417863)n4:0.00464292)n3:0.1045)n2:0.0243654)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000061_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_02081:0.00378656,GCF_002008305_4_GCF_002008305.4_00068:0.00132244)n1:0.00920197,(GCF_023573625_1_GCF_023573625.1_00062:0.0156086,(GCF_005280335_1_GCF_005280335.1_00326:0.0562451,(GCF_020097155_1_GCF_020097155.1_00266:0.0438693,GCF_020097155_1_GCF_020097155.1_00684:0.716861)n4:0.0272474)n3:0.0187114)n2:0.00920197)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000062_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00070:0,GCF_002008305_4_GCF_002008305.4_00076:0)n1:0.00120586,(GCF_003691675_1_GCF_003691675.1_02089:0.00795127,(GCF_020097155_1_GCF_020097155.1_00258:0.141675,(GCF_005280335_1_GCF_005280335.1_00317:0.018845,GCF_005280335_1_GCF_005280335.1_02338:1.21423)n4:0.134914)n3:0.257748)n2:0.00120586)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000064_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_00119:0.357038,(GCF_005280335_1_GCF_005280335.1_00265:0.0607186,(GCF_005280335_1_GCF_005280335.1_00088:0.624841,GCF_020097155_1_GCF_020097155.1_00137:0.440565)n3:0.340575)n2:0.0378417)n1:0.0101917,(GCF_023573625_1_GCF_023573625.1_00127:0,GCF_003691675_1_GCF_003691675.1_02135:0)n4:0.0235994)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000068_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00216:0,GCF_003691675_1_GCF_003691675.1_02209:0)n1:0,(GCF_002008305_4_GCF_002008305.4_00216:0,(GCF_020097155_1_GCF_020097155.1_00321:0.725649,(GCF_005280335_1_GCF_005280335.1_00167:0.0474076,GCF_005280335_1_GCF_005280335.1_02206:0.473855)n4:0.0526506)n3:0.601676)n2:0)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000070_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_02236:0,GCF_002008305_4_GCF_002008305.4_00223:0)n1:0.00215106,(GCF_023573625_1_GCF_023573625.1_00224:0.00279487,(GCF_020097155_1_GCF_020097155.1_00115:0.196804,(GCF_005280335_1_GCF_005280335.1_00157:0.11808,GCF_005280335_1_GCF_005280335.1_00588:1.2504)n4:0.138933)n3:0.0479959)n2:0.00215106)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000071_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_00236:0.00582243,((GCF_020097155_1_GCF_020097155.1_00100:0.150016,GCF_003691675_1_GCF_003691675.1_00102:0.41198)n3:0.0803618,(GCF_003691675_1_GCF_003691675.1_02249:0.00185525,GCF_023573625_1_GCF_023573625.1_00237:0.00135175)n4:0.00497574)n2:0.00055286)n1:0.0240957,GCF_005280335_1_GCF_005280335.1_00135:0.028429)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000073_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_00258:0.00275811,GCF_023573625_1_GCF_023573625.1_00257:1.20469e-06)n1:0.00625153,(((GCF_020097155_1_GCF_020097155.1_00526:0.780972,GCF_020097155_1_GCF_020097155.1_00079:0.143595)n4:0.052061,GCF_005280335_1_GCF_005280335.1_00111:0.144119)n3:0.0595365,GCF_003691675_1_GCF_003691675.1_02272:0.00953305)n2:0.00625153)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000075_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00281:0.00455281,GCF_002008305_4_GCF_002008305.4_00282:0.00810519)n1:0.00100184,(((GCF_020097155_1_GCF_020097155.1_00057:0.167643,GCF_020097155_1_GCF_020097155.1_00450:2.04508)n4:0.101533,GCF_005280335_1_GCF_005280335.1_00071:0.0693888)n3:0.0977394,GCF_003691675_1_GCF_003691675.1_02297:0.00368381)n2:0.00100184)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000079_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_005280335_1_GCF_005280335.1_00019:0.0517623,(GCF_020097155_1_GCF_020097155.1_00687:0.973311,GCF_020097155_1_GCF_020097155.1_00015:0.0556756)n3:0.042543)n2:0.0196211,GCF_023573625_1_GCF_023573625.1_00325:0.00310519)n1:0.000707155,(GCF_003691675_1_GCF_003691675.1_00033:0.00143222,GCF_002008305_4_GCF_002008305.4_00318:0.00358678)n4:0.000707155)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000085_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_00144:1.07609e-06,((GCF_002008305_4_GCF_002008305.4_00423:1.07609e-06,(GCF_005280335_1_GCF_005280335.1_02535:0.426985,GCF_020097155_1_GCF_020097155.1_02405:0.0545607)n4:0.112307)n3:0.0500062,GCF_005280335_1_GCF_005280335.1_02534:0.408798)n2:0.045422)n1:0.0181123,GCF_023573625_1_GCF_023573625.1_00426:1.07609e-06)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000086_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_00448:9.89524e-07,GCF_003691675_1_GCF_003691675.1_00169:0.00144544)n1:0.00012172,(GCF_023573625_1_GCF_023573625.1_00451:0.00279306,(GCF_005280335_1_GCF_005280335.1_02509:0.0405486,(GCF_020097155_1_GCF_020097155.1_00683:0.879254,GCF_020097155_1_GCF_020097155.1_02380:0.044158)n4:0.00490644)n3:0.0164049)n2:0.00012172)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000093_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_005280335_1_GCF_005280335.1_00578:0.083449,((GCF_023573625_1_GCF_023573625.1_02119:5e-07,GCF_002008305_4_GCF_002008305.4_02174:5e-07)n3:0,(GCF_020097155_1_GCF_020097155.1_00505:0.0795175,GCF_002008305_4_GCF_002008305.4_00604:1.63863)n4:0.0581179)n2:0.00645755)n1:0.0638863,GCF_003691675_1_GCF_003691675.1_01888:5e-07)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000095_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_00611:0.138852,((GCF_003691675_1_GCF_003691675.1_00327:0,GCF_023573625_1_GCF_023573625.1_02008:0)n3:0.110276,(GCF_020097155_1_GCF_020097155.1_01190:1.83429,GCF_003691675_1_GCF_003691675.1_01771:0.2065)n4:0.0520686)n2:0.0057854)n1:0.0162313,GCF_005280335_1_GCF_005280335.1_02344:0.186836)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000096_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_020097155_1_GCF_020097155.1_00544:0.233251,GCF_020097155_1_GCF_020097155.1_00702:0.216236)n2:0.0796547,(GCF_003691675_1_GCF_003691675.1_00326:0.0188012,(GCF_003691675_1_GCF_003691675.1_01774:0.0629467,GCF_002008305_4_GCF_002008305.4_00614:0.0369522)n4:0.165104)n3:0.0183449)n1:0.143923,GCF_023573625_1_GCF_023573625.1_02007:0.0229808)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000101_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_003691675_1_GCF_003691675.1_00387:0.00714744,GCF_023573625_1_GCF_023573625.1_00620:0.00460756)n2:0.0232114,((GCF_020097155_1_GCF_020097155.1_02170:0.0998882,GCF_002008305_4_GCF_002008305.4_00841:2.72111)n4:0.166145,GCF_002008305_4_GCF_002008305.4_00650:0.0268802)n3:0.00298669)n1:0.0241048,GCF_005280335_1_GCF_005280335.1_02313:0.0815279)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000102_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00626:0.00215956,GCF_002008305_4_GCF_002008305.4_00656:1.76115e-06)n1:0.000439155,(GCF_003691675_1_GCF_003691675.1_00393:1.76115e-06,(GCF_020097155_1_GCF_020097155.1_02164:0.1325,(GCF_005280335_1_GCF_005280335.1_02307:0.0793687,GCF_005280335_1_GCF_005280335.1_00162:1.35017)n4:0.150019)n3:0.0467118)n2:0.000439155)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000103_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_00662:0.0145909,(GCF_020097155_1_GCF_020097155.1_02443:0.882809,(GCF_005280335_1_GCF_005280335.1_02262:0.241719,GCF_005280335_1_GCF_005280335.1_02263:0.102872)n3:0.0114302)n2:0.613258)n1:0.0082523,(GCF_002008305_4_GCF_002008305.4_00692:8.77e-06,GCF_003691675_1_GCF_003691675.1_00429:0.00258823)n4:0.0082523)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000121_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01147:0.00354933,(GCF_020097155_1_GCF_020097155.1_01639:0.0945169,(GCF_005280335_1_GCF_005280335.1_01745:0.018807,GCF_005280335_1_GCF_005280335.1_00771:1.29056)n3:0.143396)n2:0.0146736)n1:0.00258283,(GCF_003691675_1_GCF_003691675.1_00866:0,GCF_023573625_1_GCF_023573625.1_01097:0)n4:0.00258283)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000122_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01152:0.006064,(GCF_005280335_1_GCF_005280335.1_01740:0.0136365,(GCF_020097155_1_GCF_020097155.1_01634:0.133546,GCF_020097155_1_GCF_020097155.1_00545:1.72434)n3:0.191594)n2:0.0490223)n1:0.0054025,(GCF_023573625_1_GCF_023573625.1_01102:0,GCF_003691675_1_GCF_003691675.1_00871:0)n4:0.0054025)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000125_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01334:0,GCF_023573625_1_GCF_023573625.1_01290:0)n1:0.0009345,(GCF_003691675_1_GCF_003691675.1_01055:0.001254,(GCF_005280335_1_GCF_005280335.1_01557:0.0230717,(GCF_020097155_1_GCF_020097155.1_00131:1.74033,GCF_020097155_1_GCF_020097155.1_01453:0.080809)n4:0.155963)n3:0.0602017)n2:0.0009345)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000126_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_01296:0,GCF_003691675_1_GCF_003691675.1_01061:0)n1:0.001687,(GCF_002008305_4_GCF_002008305.4_01341:0.009796,(GCF_005280335_1_GCF_005280335.1_01551:0.0524475,(GCF_020097155_1_GCF_020097155.1_01415:2.21555,GCF_020097155_1_GCF_020097155.1_01447:0.0115707)n4:0.240493)n3:0.0441125)n2:0.001687)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000127_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_01089:0.0279526,((GCF_002008305_4_GCF_002008305.4_01953:2.62665,GCF_005280335_1_GCF_005280335.1_01524:0.149712)n3:0.147465,(GCF_002008305_4_GCF_002008305.4_01369:0.0206304,GCF_023573625_1_GCF_023573625.1_01324:0.0139016)n4:0.00471415)n2:0.000523794)n1:0.123173,GCF_020097155_1_GCF_020097155.1_01419:0.355848)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000129_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_003691675_1_GCF_003691675.1_01182:0.0783039,((GCF_020097155_1_GCF_020097155.1_01775:2.07476,GCF_020097155_1_GCF_020097155.1_01353:0.118945)n3:0.0679801,GCF_005280335_1_GCF_005280335.1_01449:0.0893554)n2:0.0175669)n1:0.0219283,(GCF_023573625_1_GCF_023573625.1_01400:0.0126206,GCF_002008305_4_GCF_002008305.4_01450:0.0209564)n4:0.0219283)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000133_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01569:0.00075565,GCF_003691675_1_GCF_003691675.1_01279:0.00286035)n1:0.00214667,(GCF_023573625_1_GCF_023573625.1_01496:0.011983,(GCF_020097155_1_GCF_020097155.1_01248:0.116296,(GCF_005280335_1_GCF_005280335.1_01355:0.0971153,GCF_005280335_1_GCF_005280335.1_02577:0.253778)n4:0.0281976)n3:0.0438714)n2:0.00214667)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000137_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ (((GCF_003691675_1_GCF_003691675.1_01296:0.0107404,GCF_023573625_1_GCF_023573625.1_01512:0.00705462)n2:0.004935,((GCF_002008305_4_GCF_002008305.4_02251:0.0624845,GCF_020097155_1_GCF_020097155.1_00456:0.143819)n4:0.743811,GCF_002008305_4_GCF_002008305.4_01585:0.0049464)n3:0.0005496)n1:0.002995,GCF_005280335_1_GCF_005280335.1_01337:0.012057)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000140_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_002008305_4_GCF_002008305.4_01624:0.00159981,GCF_003691675_1_GCF_003691675.1_01330:0.00262219)n1:0.00496603,(GCF_023573625_1_GCF_023573625.1_01551:0.0129489,(GCF_005280335_1_GCF_005280335.1_01273:0.00074256,(GCF_020097155_1_GCF_020097155.1_01182:2.97924e-06,GCF_020097155_1_GCF_020097155.1_00781:2.65218)n4:0.294686)n3:0.00535781)n2:0.00496603)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000147_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_023573625_1_GCF_023573625.1_01730:0.0181789,(GCF_020097155_1_GCF_020097155.1_01000:0.112101,(GCF_005280335_1_GCF_005280335.1_01065:0.0541836,GCF_005280335_1_GCF_005280335.1_02644:0.750796)n3:0.0834218)n2:0.0335367)n1:0.00407606,(GCF_003691675_1_GCF_003691675.1_01506:0,GCF_002008305_4_GCF_002008305.4_01809:0)n4:0.00407606)n0;
Biomni/experiments/bioagent_bench/runs/scale_750/comparative-genomics_20260519_131022/orthofinder_input/OrthoFinder/Results_May19/Resolved_Gene_Trees/OG0000153_tree.txt ADDED
@@ -0,0 +1 @@
 
 
1
+ ((GCF_005280335_1_GCF_005280335.1_00882:0.10563,GCF_003691675_1_GCF_003691675.1_01669:0.00015482)n1:0.00342676,(GCF_023573625_1_GCF_023573625.1_01901:0.00436273,(GCF_020097155_1_GCF_020097155.1_00817:0.0844846,(GCF_002008305_4_GCF_002008305.4_01976:0.0780945,GCF_002008305_4_GCF_002008305.4_01975:0.088041)n4:0.00978234)n3:0.445738)n2:0.00342676)n0;