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Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000011.fa

@@ -0,0 +1,39 @@
+>0_584
+MLTIATRLDVMNRLGRAMADPTRSRILLNLLEGPGYPAELAQALGLTRSNVSNHLACLRD
+CGIVAAEHQGRRTRYAIVDAHLARALSALLEVTLAVDASAPCLDPGCPVPGCCDTGQVAS
+>0_591
+MMTIASRLDVMNRLGRALADPTRSRIILTLLDHPAYPAELARDLDLTRPNVSNHLACLRD
+CGIVVSEPEGRRTRYEIADSHLAQALTALVDATLAVDEDAPCIDPACSLPGCDAAGEGA
+>0_2013
+MADPTRSRILMTLLERPAYPAELARDLGLTRSNVSNHLACLRDCGIAVAVAEGRQTRYEI
+ADAHLARALTALVEVTLAVDESAPCIDPACSLPGCDAAGEGA
+>1_323
+MMTIASRLDVMNRLGRALADPTRSRIILTLLDHPAYPAELARDLDLTRPNVSNHLACLRD
+CGIVVSEPEGRRTRYEIADSHLAQALTALVDATLAVDEDAPCIDPACSLPGCDAAGEGA
+>1_334
+MQMCRYQQREPHTRGQQVLYAQRMLTIASRLDVMNRLGRAMADPTRSRILMTLLEGPSYP
+AVLARDLGRV
+>1_753
+MQMCRYQQREPHTRGQQVLYAQRMLTIASRLDVMNRLGRAMADPTRSRILMTLLEGPSYP
+AVLARDLGHV
+>1_1719
+MLTIATRLDVMNRLGRAMADPTRSRILLSLLEGPGYPAELAQALGLSRSNVSNHLACLRD
+CGIVAVEHQGRRTRYAIVDAHLARALSSLLEVTLAVDASAPCLDPGCPVPRCCDTAEVAS
+>1_1729
+MMTIASRLDVMNRLGRALADPTRSRIILTLLDHPAYPAELARDLDLTRPNVSNHLACLRD
+CGIVVSEPEGRRTRYEIADSHLAQALTALVDATLAVDEDAPCIDPACSLPGCDAAGEGA
+>2_701
+MLTITSRLEVMNRLGRAMADPTRSRIILTLLDHPAYPAELARDLDLTRPNVSNHLACLRD
+CGIVVSEPEGRRTRYEIADSHLAQALTALVDATLAVDEDAPCIDPACSLPGCDAAGEGA
+>2_709
+MLTIASRLDVMNRLGRAMADPTRSRILMTLLEGPSYPAVLARDLGLTRSNVSNHLTCLRD
+CGIVVAEPEGRQTRYEIADPHLGAAMTALVEVTLAVDENAPCVDATCTVPGCCPSGTVA
+>2_2314
+MLTVASRLDVMNRLGRAMADPTRSRILMTLLDGPSYPAVLSRELELTRSNVSNHLTCLRD
+CGIVVAEPEGRQTRYEIADPHLAAALTALVDVTLAVDEHAPCVDSSCTVPGCCGTGAGE
+>4_1942
+MADPTRSRILMTLLERPAYPAELARDLGLTRSNVSNHLACLRDCGIAVAVAEGRQTRYEI
+ADAHLARALTALVEVTLAVDESAPCLDPACSVPGCCEKGVGA
+>4_1945
+MSTTTLTHVSALSRLGHALSDDTRTRILLALRDGPARPSALAGELGVSKQVMSNQLACLR
+GCGLVTTTAEGRNVWYALADPRLGQTLGELLELTLTIDPDCCSAAGCTCA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000018.fa

@@ -0,0 +1,57 @@
+>0_1505
+MPRVVTPLPPDQPAVLLATDLARLGLPPDRARRSDLERVGQGFHRQRARPGTGWADLGLP
+EPGHGFSPDHLAALLRRRPDAVLSHETAAHLHALPMPTRAWRRRDPATGELEADPPVHLT
+VARGTRRVRRAGLMDHRRPLAPEFVTLVHGLRVTTVDRTWLDLCSLTPPWTFEDLVAAGD
+HAVRHPWTPAGRTDPATTIAALRSALHASGRFHGRPAAREALDSVRVGADSPPETRLRLA
+LVAGGLPEPELQAALEPGDPVSPVADLAYRHVRLALQYDGAGHRTREQQARDARRDRYGQ
+ARGWTTLRVTWADGREDFRGVVAVVRRRLGPSAST
+>0_1604
+MPFAPDLPLVPVFTTRDVLERGLPPSRVRRSDVLRLARGIHRRRDMPLRTWESAGLPPPH
+HGVGLDLLTALLRSRPDAVLSHETAAHLHGLPLPPGGATRRAAVEITLHRGTARARIPGV
+MEHRRPLPAGHVTSVLGLRVTTPERTWLDLCSIGHPWDEASLVSAGDHLVRHPWSPRGRR
+PPITTVTALHEAMRPLGRFVGRPRATAALERVRVGADSPQETRLRLALVEAGLGEPALQH
+VFDPGRRDAPEADLWFEDCRLVLQYDGEVHRSAEQHARDARRDQYYAERGQMTLHVTGRD
+VGEGYARVIEAVLRRRAQVSNGWDA
+>0_1786
+MPRRPAPLPPALAGRVFTRREALDRLSLSSDRLRSLDLRQVTHGAHRAVVDVPGSWAALG
+YPRPVAALPPEEAAVVVALTRGVASHLTAARLHGLVLPWWAEEDMRVHVSRPHRTGRTGR
+AGVACHGRTVPAEDRVEVHGVPVTSLERTWVDLCSLLRPDQVADAVVAGDALVNRPWVDG
+SRLPPRTTASRLSAALERAGRFKGVRVARAALALIRVGADSPPETRLRLALLDAGLPEPR
+LQAQLVSPAGERTDADMVVERSRVALHYDGGHHRTPEQQRRDARRDRLWQEAGHLSITVM
+GADLAEDFRTVVAAVVRHDRAARATSTISAPAPAAGLSNVKSGEWALSNVG
+>1_1225
+MPRVVTPLPPDQPAVLLATDLARLGLPPDRARRSDLERVGQGFHRQRAHPGTGWADLGLP
+EPGHGFSPDHLAALLRRRPDAVLSHETAAHLHGLPMPARAWRRRDPATGELDVDPPVHLT
+VARGTRRVRRAGLMDHRRPLAPEFVTHVHGLRVTTVDRTWLDLCSLTPPWTFEDLVAAGD
+HAVRHPWTPAGRTDPATTIAALRSALHASGRFHGRPAAREALDSVRVGADSPPETRLRLA
+LVAGGLPEPGLQAALEPEDPFSPVADVAYRHVRLALQYDGAGHRTREQQARDARRDRYGQ
+ARGWTTLRVTWADGREDFRGVVAVVRRRLGHSAST
+>1_1319
+MSFAPDLPLVPVFTTRDVLERGLPPSRVRRSDVLRLARGIHRRRDMPLRTWESAGLPPPH
+HGVGLDLLTALLRSRPDAVLSHETAAHLHGLPLPPGGATRRAAVEITLHRGTARARIPGV
+MEHRRPLPAGHVTSVLGLRVTTPERTWLDLCSIGHPWDEASLVSAGDHLVRHPWSPRGRR
+PPITTVTALHEAMRPLGRFVGRPRATAALERVRVGADSPQETRLRLALVEAGLGEPTLQH
+VFDPGRRDAPEADLWFEDCRLVLQYDGEVHRSAEQHARDARRDQYYAERGQMTLHVTSRD
+VGEGYARVIEAVLRRRAQVSNGWDA
+>2_1211
+MRVHRRTVPVEHRSVVHGLTVTSPERTWADLCAVRPRWDEADLVAAGDHLVRHPWAGGGR
+LPPRTTVERLAEVLEALAPFHGVGRARAALGRVRVGADSAMETHARLALIDAGLGEPLLQ
+HKVAPDDPALAESDLYFADLRVALEYDGEHHLGRQQQARDARRDRRLLSYGVTPMRITAA
+DHAEGYRSVIAQLQQRRRAHDSPSEETARGES
+>3_1123
+MLERVRVGADSAVVSLARLALVDAGLGEPLLQHRLDPWDPDCPETHMFSPELAVALEYDG
+GGHLTPAQQARDARRDRRLPARGVTPLRNTAEDHAEGYRRLIAQLQDRRRGR
+>4_1432
+MPRVVTPLPPDQPAVLLATDLARLGLPPDRARRSDLERVGQGFHRQRAHPGTGWADLGLP
+EPGHGFSPDHLAALLRRRPDAVLSHETAAHLHGLPMPARAWRRRDPATGELDVDPPVHLT
+VARGTRRVRRAGLMDHRRPLAPEFVTHVHGLRITTVDRTWLDLCSLTPPWTFEDLVAAGD
+HAVRHPWTPAGRTDPATTIAALRWALHASGRFHGRPAAREALDSVRVGADSPPETRLRLA
+LVAGGLPEPELQAALEPGDPFSPVADLAYRHVRLALQYDGAGHRTREQQARDARRDRYGQ
+ARGWTTLRVTWADGREDFRGVVAVVRRRLSPSAST
+>4_1534
+MSFAPDLPLVPVFTTRDVLERGLPPSRVRRSDVLRLARGIHRRRDMPLRTWESAELPPPH
+HGVGLDLLTALLRSRPDAVLSHETAAHLHGLPLPPGGATRRAAVEITLHRGTARARIPGV
+MEHRRPLPAGHVTSVLGLRVTTPERTWLDLCSIGHPWDEASLVSAGDHLVRHPWSPRGRR
+PPITTVTALHEAMRPLGRFVGRPRATAALERVRVGADSPQETRLRLALVEAGLGEPTLQH
+VFDPGRRDAPEADLWFEDCRLVLQYDGEVHRSAEQHARDARRDQYYAERGQMTLHVTSRD
+VGEGYARVIEAVLRRRAQVSNGWDA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000030.fa

@@ -0,0 +1,68 @@
+>0_161
+MTVGAGLLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLGDRI
+GHRRMFVVGLWIFGAASLAAALSPNPAFLIGARALLAVGAAAMMPATLALIRLAFNDPRE
+RNIAIAIWGSLSIAGAALGPILGGALLERFWWGSVFLINVPVVVIALVATAIIAPHNDPD
+PSKKWDLVSSLYAMVGLVGTVLVIKELAHIPQNWVLIAGALASAVIGFVLFVRRQGRLEE
+PLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTPLQAGLLVAASALGA
+LPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGSLPLLVVSFIVTGFGLGGT
+FAVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPAA
+AGESIADALGIADGDLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSE
+AMEYAENH
+>1_344
+MTVGAGLLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLGDRI
+GHRRMFVVGLWIFGAASLAAAFSPNPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRE
+RNIAIAIWGSLSIAGAALGPILGGALLERFWWGSVFLINVPVVAIALVATAIIAPHNHPD
+PSKKWDLVSSLYAMVGLVGTVLVIKELAHIPQNWVLIAGALASAVIGFVLFVRRQGRLEE
+PLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTPLQAGLLVAAIALGA
+LPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGSLPLLVVSFIVTGFGLGGT
+FAVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPAA
+AGESIADALGIADGDLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSE
+AMEYAENH
+>2_161
+MSALRRWSALAVLVLPVLLISIDMSVLGIAVPALSADLDPTSGQLLWIIDLYSFLLAGLL
+IFMGSLGDRIGRRRILLIGAPLFGAASLAAAFASSAEMLIAARALLGVGGATLMPSTLGL
+IRTIFPDRAERRTAIAVWAMAFSGGAALGPVVGGILLERFWWGSVFLMNVPVMAVFLLVA
+PFLLPESRDPSPGPFDPLSSVLSIAGIVGLVYALKTAAKSPDWTALAGLVVGATALAWFI
+ARQRRLAHPMIDVALFRNVAFTSAVSVNVISVFAFMGLMFFLPQFLMLVQGMGPAEAGLW
+MLPLAAAAVVGTLLAPLLARVVAVRTVILTGLALVIAGFAVGTRLDGAAPLVAFVLLSCL
+FGVGVGLAETLTNDVILTAAPPERAGAAAAISETGYEFGGAMGTAVLGTVGMAVYAARVQ
+EAAGLPGLGPADAEAAAQTLAAAHRIGEGLPDGGARLVEVANGAFTAGMDLVAGIGIGVA
+AVTLLLAWRGLRSEARVERPVED
+>2_181
+MVILNETIMSVALPRLMAEFTVTAATAQWLTTGFMLTMAVVIPFTGWLLNRMSLRAVFIL
+AMGTFTAGTAIAGLAPTFGLLLTGRVVQAVGTAIMMPLLMTTVLNVVPLSRRGRVMGLIS
+IVISVAPASGPAVGGVILEHLSWRWLFFTVLPIAAIALAAGAAWVRNVTEPRPVRLDVLS
+GVLSAVGFASLIFGLSSIGEAAAGNAAMPPWIPVAVGVLALALFAVRQLRLKDDALLDLR
+TLSRPTFTVALAVMLTSMLALFGTIVLLPIYLQEVLGWTTQQSGLALLPGGMVMALLGYV
+VGHLYDRVGAPPLIVPGAVLGAAGLWGYTFLSEDSSAFMVVGLHVLISTGLSMLFSPLMT
+TALSALPRSLYAHGSALVSTLQQVAGAAGTALFITLLTVGTASSVAGGLGEVASLMDGVH
+LAFLSGALVFTVNVVAVWFVKRPAPNPL
+>2_2167
+MLSGTSTTSRGTGPAPVRAWLVLCAMSMLQFFIAVDVTVVNIALPSIGADLGVAGHSLTW
+VVVGYTITGGGLLMLGGRIGDLLGRRRTLLVGTSVFGAASLLAGLAPSFPVLVAARLLQG
+AGEAVALPAAMATIVLLFPEGPRRSRALSVWAAVASCGLVLGFALSGIITAHLGWRWVFL
+VSVPFILVVIVTALLLVPADRPASGGRVRLDLPGSLLLTACPLLFVYAAVEAGEPATGLW
+VSGVALLCAVLAAAGFVRVESRSPNPLVPLTFFADRARLRANLTTMLLSGALSTSFLLFT
+FYLQDRLGIGPLGAGLTMLPLAVALIVASVLVPRLLGRWGARACVLVGLGAAAGAMGVVA
+LVAVLGSGATWLLPAMLLIAAGMGFGLVGLQYIAVSGTTEEDAGIASGVQRASDQLGGAA
+GVAVYVGLGFAPALHADAGDPFVVAAVLAVVGLVVGAVVISRSPSTAAGQPQAG
+>2_2283
+MTVGAGLLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLGDRI
+GHRRMFVVGLWIFGAASLAAAFSPSPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRE
+RNIAIAIWGSLSIAGAALGPILGGALLERFWWGSVFLINVPVVVIALVATAVIAPHNDPD
+PSKKWDLVSSLYAMVGLVGTVLVIKELAHIPQNWVLIAGALASAVIGFVLFVRRQGRLEE
+PLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTPLQAGLLVAAIALGA
+LPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGSLPLLVVSFIVTGFGLGGT
+FAVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPAA
+AGESIADALGIADGDLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSE
+AMEYAENH
+>4_1950
+MTVGAGLLLITLDNSILYTALPTLTADLGASGSSTLWIINAYPLVMAGLLLGAGTLGDRI
+GHRRMFVVGLWIFGAASLAAAFSPNPAFLIGARALLAVGAAAMMPATLALIRLAFDDPRE
+RNIAIAIWGSLSIAGAALGPILGGALLERFWWGSVFLINVPVVAIALVATAIIAPHNHPD
+PSKKWDLVSSLYAMVGLVGTVLVIKELAHIPQNWVLIAGALASAVIGFVLFVRRQGRLEE
+PLIEFSIFRNRAFAGGSLAAFFAMFTIAGAQLATTQRFQLVEGFTPLQAGLLVAATALGA
+LPSGVLGAAILHIVGLRIIISGSLAIAALGLALAVLASANGSLPLLVVSFIVTGFGLGGT
+FAVASAAIMGNAPPRKAGMAASIEEVSYEMGSLSAVALLGSLLTFVYATVVRLPDGTPAA
+AGESIADALGIADGDLDVIAAATSAYDTAYLVTMIVLAVMLASGAALTNRLLRAYGRGSE
+AMEYAENH

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000033.fa

@@ -0,0 +1,58 @@
+>0_251
+MPDSSPSTPSVRSGAPSRARRSSAWRQARSLRWRAFWAAAPLSRVYLAFGSAFLLASTAS
+DIGLFGPGHGAIPVLDGIAIASATSAFLAQWWRSTVGFALLLPGAVATVVGGSEVLFAVV
+APVVLGAVAATARSWGFVVTAAVLALTWGVAQPFAVGQSNATWFILLLMSMGLGGGLFIR
+ESLARRERDRRRVFEAEERARLAAEAERRSLARDLHDVVAHNLTIISMQARTARYLGAPE
+AAQGVLDVVGDSAKDALRDLRRMLSILQEDGIVDPSGEPGAAGGADGATSADPVLSVAQL
+AEELRSLGMTVETDVRCDQNAMPISVRSTLHRVLQEATTNVAKHAGEGARVCIELRDAGP
+DVVLEVENTVTERSGPPQWNSSGVGLNSMRDRVATFGGTIEAGPGGWGWRVRAVLPRSV
+>1_2215
+MPDSSPSTPSVRSGAPSRARRSSAWRQARSLRWRAFWAAAPLSRVYLAFGSAFLLASTAS
+DLGLIGPGLGAIPVLDGIAIASATSAFLAQWWRSTVGFALLLPGAVATAAGGSEVLFAVV
+APVVLGAVAATARSWWFVVTAAVLALTWGVAQPFAVGQSNATWFILLLMSMGLGGGLFIR
+ESLARRERDRRRVFEAEERARLAAEAERRSLARDLHDVVAHNLTIISMQARTARYLGAPE
+AAQGVLDVVGDSAKDALRDLRRMLSILQEDGIVDPSGEPGAAGGADGATSADPVLSVAQL
+AEELRSLGMTVETDVRCDQNAMPISVRSTLHRVLQEATTNVAKHAGEGARVCIELRDAGP
+DVVLEVENTVTERSGPPQWNSSGVGLNSMRDRVATFGGTIEAGPGGWGWRVRAVLPRSV
+>2_100
+MPESTAVRSRLLSGAPRRARRSSSPDEESLGPAGRWRAFWAAGPLSRVYLVAGSVLLLVS
+AASDLGLIGGGAFATAPLDVAVIVSTTAAFLAQWWRSTVGFALLVPAGAATIAGGTEALV
+TLVTAAMLAAVTVTARSWAFVVAAATLALAWGVVRPVASGRPSEAWFVLALMTAALGVGL
+FIRESVARRERDRRRILEAEERARLAAERERRSLARDLHDVVAHNLTIISMQARTAQYLG
+TPEAAQSVLAVVGDSAKDALVDLRRMLAILQEDGIVDPAGEPGAAGGADGATSADLALTA
+GRMAAELRSLGMSVEQDLRFDPEAVPMSVRSALHRVLQEATTNAAKHAGTGAEVRIMVAE
+QGRDVVLEVENSVAAPQRSMRWNSSGVGLQSMRDRVATFGGTLEAGPGGRGWLVRAAIPR
+APEGA
+>2_572
+MAGVELAYLSDFISEMPWRHGVGWVALGAAVLALPLAWRRRFPVTVMLTISVLYIALASW
+VGIELYASQVVLFLGFYSVGAWCPDRRRALWSRTAVAAAMAVWLGWVTVDGFTDPEVGER
+GVNAYAAVAAIQFLVNLAYFSGAWIFGDRAWREAIRRQRLEAAHAEIRAQQARIAAQEVS
+LERLRIARELHDVVAHHVTAMGVQAGAARLTLDRDPEAAAGHLRGIESSAREAVAELKTM
+VHTLRDADAAPDSLPRLADLEDLVAQAVRLGTDARLTRVGPEPRLGAPAELALYRVAQEG
+LTNARRHAGPRAAVEVRLRTEPERVELEVSDDGRARPDAEAGSERSPGGAGGAVPAGTGL
+GLVGMAERMASVGGTVRCGPKPGGGWLVRASVPTLPEPGEDAAWDAPDEPAPAPDETVQP
+ETMPDPTTEATR
+>3_68
+MSRARLGSTLRSLLDPVSPPAGGRVRFWDAAPANRVYLVVGSVFSVASTTSDVMIELGRG
+GGDTRADIAFMVLACLAFLAQWWRTTVAYAVVLLLMAASLVGGDAVSVVLVLPFVLGTVV
+ATAQSGRYLLAAGATALAWVVAVSLVGSGKVDGVAWLTLLLVVVGLGVGASIRAAKLQRV
+QDGRRIAEAERLAREAAERERRILARDLHDIVAHNLTIIAMQANAAQYLGTPEAAQQVVR
+VVGESARDALTDLRRMLSILQEDGVVEPAPTPGTPETDDAATVAQLGPGAERLAEELRLA
+GVDAAVRVELGEVGLNLGVRAALYRVMQESVTNVAKHAGPGQACEISIEARGGEVVLEVV
+NTLPEDGPRSVVGNSSRVGLTSMRDRIEAFGGRLEVGPCGGDRWRVRAAVPRPEA
+>3_507
+MVGGLLLVWETADLALGAAGRPGGGLLDSADALFSLGTGVTLVLALAGARALMGCYTLLV
+LSALASGFYALPVVTVGLAMGFAALYLSRTPLVVFSCTLLATTVLTAALRPDHLDVLPLM
+LVPALAGTAVGLLLRRESVSLERARRRNLELVEARDRATADIRRSLARDLHDVVAQDLAV
+LAMQTQAIRVAPDRAAQQRMADAVADVARQAHANLRGLLQVLYAGTDVDARRGTGTPDAL
+DTALVTSSAQAARDAAARLRAHGFDVDLQVQEQDGVRAPRHVDATVHRIAHEAVTNVVKH
+APAGGACQVLFTLSPGQVRLRVLSELSPAQHPGRPRDAPQPDGSFGVLNIRERAGLLGGR
+ADVGPREGRWHVDVRIPFGVPA
+>4_249
+MPDSSPSTPSVRSGAPSRARRSSAWRQARSLRWRAFWAAAPLSRVYLAFGSAFLLASTAS
+DIGLFGPGHGVIPVLDGIAIASVTSAFLAQWWRSTVGFALLLPGAVATVVGGSEVLFAVV
+APVVLGAVAATARSWGFVVTAAVLALTWGVAQPFAVGQSNATWFILLLMSMGLGGGLFIR
+ESLARRERDRRRVFEAEERARLAAEAERRSLARDLHDVVAHNLTIISMQARTARYLGAPE
+AAQGVLDVVGDSAKDALRDLRRMLSILQEDGIVDPSGEPGAAGGADGATSADPVLSVAQL
+AEELRSLGMTVETDVRCDQNAMPISVRSTLHRVLQEATTNVAKHAGEGARVCIELRDAGP
+DVVLEVENTVTERSGPPQWNSSGVGLNSMRDRVATFGGTIEAGPGGWGWRVRAVLPRSV

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000037.fa

@@ -0,0 +1,33 @@
+>0_722
+MAARGETTADRRGGRGTDRRPGTAGAVALGGAAGVLCGAGVMNAVTALAGAPNFRGTFGA
+AFGAVDVLVQALPLFVVNVLGSFLLGLLWAASRRRGPDWRPRLVAGLGTGFLGAFTTISS
+AVALVLWPVRLGAAVSGAGGVLAAAVAVLLVLALMAALSTAAAMLGLRAGGAPGSRVVGT
+DRSEEDA
+>1_461
+MAARGEPTADRRGGRGTDRRPGTAGAVALGGAAGVLCGAGVMNAVTALAGAPNFRGTFGA
+AFGAVDVLVQALPLFVVNVLGSFLLGLLWAASRRRGPDWRPRLVAGLGTGFLGAFTTISS
+AVALVLWPVRLGAAVSGAGGVLTAAASVLLVLALMAALSTAAAVLGLRAGGAPGSRVVGA
+DRSAEDA
+>2_2132
+MRAPGVRGAVALGGAAGVVAGSTAMELVGVGGLLALAGRDGGVGLGPVAALAFAALPLAV
+VNVLGSFLLGLLLARSRHAGLDRRPALVAGLGTGFLGSFTTIATAAAVFLLTPLEAGWSA
+IAASSGVGGFLSATAGLLLPPLALLALLAALSTAAAVLGLRLGGAPARGADAEARVDGVA
+SDGTAADGAPA
+>3_668
+MNAALIVVVALGGGAGAAGRFLLDGLINTGREFRLPVGTLTINITGSLLLGIIVGAATHL
+GAVPVAVLGTGVMGGYTTFSTASFETVRLARSGRITAAAINGLGMLVVSVAAATAGILLG
+GTL
+>3_669
+MTTRTDTPMPDDQLPPDPDVDVSDPATTMRPVHLRWRYVGLVAVGGAGGTALRDVISSVL
+PADGGVSWSIFWINITGALALGVLLEALAHRGPDAGRRRVLRLLLGTGVLGGFTTYSTLA
+ESTAALFLDGHGLAGTGYALLTVLSGAIATACGLVVAGWFRPRTEEA
+>3_2026
+MADARPAAGGAAARRTLPWVALGGAAGALASLGAGALIAQAMGPGDPSISGPLGTASATL
+ASVAAVNVLGSFLLGLLRGASGRPGARWDPRLVAALGTGFLGAFTTFGTVAATLALPVMM
+TAGLAATGDTWWILLAVVVVGLLIAVAVLAALSTAAAALGLHLGGRGAGSGSAGRPDGAA
+A
+>4_686
+MAARGETTADRRGGRGTDRRPGTAGAVALGGAAGVLCGAGVMNAVTALAGAPNFRGTFGA
+AFGAVDVLVQALPLFVVNVLGSFLLGLLWAASRCRGPDWRPRLVAGLGTGFLGAFTTISS
+AVALVLWPVRLGAAASGAGGVLAAAVAVLLVLALMAALSTAAAVLGLRAGGAPGSRAVGT
+DRSAEDA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000038.fa

@@ -0,0 +1,74 @@
+>0_806
+MGWEHEDPRFDARATGFANEPHRFGYIVEIDP
+>0_807
+MGRFKHEGANVIVADDGHVVAYMGDDERFDYLYKFVSKDIYRKNDRRHNMTLLNEGDLYV
+ARFSGTSDGEIDGSGRVPADGTFDGSGRWIPLVQGGRSTVEGMAVDQVLVFTRLAADRVG
+ATKMDRCEDVEPSPGSGKIYVACTNNSQRGVDGQATADEANPRTENRDGHIVEITEHRGD
+HTSTRFTWDLLMLCGDPSQGDATYFGGFPVDQVSPISCPDNLAFDTDGNLWISTDGAPDG
+IGYNDGLFKVAVEGRNRGQVAQFLSVPRDAETCGPVIHDDEAMVFVAVQHPGEEGSYTDI
+RSAFPDYVPSEARPGDGEVRGPRPSIVQVYRT
+>0_1720
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGT
+GLAAAVVIGSQVAQAPEALADNGRRPTGGGKLPFEPIAPVTRTVDTMTVPEGYDWGTVIR
+WGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGGNDRSGYLVSNHEYTNENIMF
+SPEYIASNFEDVVNVGLQAHGLSIVELKCAKRGAQWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLTTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGIST
+SATRRGWEKVHDRFDLTKPGYENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAV
+ISPSGHAVVYSGDDERHDYLYKFVSAEKVREGDKKHNMRLMDKGTLYVAKFSGDSPAAQI
+DGRGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKRTAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGD
+PAVSSSAYFAGYPKEKVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAE
+RGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHPGEDGTWGAHTSYFPDFLSPTGPVQV
+GDKVAAPRPSVVQVFNATGNNGVGKGAGKEKGNKGKGNGNGNGKGNGNGKGPKG
+>1_1437
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGT
+GLAAAVVIGSQVAQAPEALADNGRRPTGGGKLPFEPIAPVSRTVDTMTVPEGYDWGTVIR
+WGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGGNDRSGYLVSNHEYTNENIMF
+SPEYIASNFEDVVNVGLQAHGLSIVDLKRAKRGAPWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLKTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGISA
+AATSRGWEKVHDRFDLTKPGYENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAV
+ISPSGHAVVYSGDDERHDYLYKFVSAEKVREGDKKHNMRLMDKGTLYVAKFSGDSPAAQI
+DGRGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKRTAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGD
+PAVSSSAYFAGYPKEKVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAE
+RGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHPGEDGTWGAHTSSFPDFLSPTGPVQV
+GDKVAAPRPCVVQVFNATGNNGIGKGAGKEKGNKGKGNGNGNGKGNGKGNGNGKGPKG
+>2_1078
+MLKRLLPMAGHTRGNRSAVTCALKCGNACSHPMPNTSANTTFQEIAETAISRRAALGVGG
+GLAAAVVIGAQVAQAPEALADNGAAPRGGGKLDYRAIAPVPRTVDTVTVPEGYDWGTVIR
+WGDPLFADSEEFDILHQTGASQAGQFGYNNDYLNIISDGGNDRSGYLVSNHEYTNEYIMF
+PPAYIASNFTDVVDAAIEAHGLSIVDLKRAKQGAKWEYVRGGRRNRRITGTTPFTVTGPA
+AGHALLKTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGIGT
+GTTERRWEEVHDRFDLTAPGYENEANRFGWIVEIDPEDPASTPVKRTLLGRFKHEAGTAV
+VAPSGQAVVYSGDDERHDYLYKFVSAEKVVEGDKKHNMTLLDEGTLYVARFTGDSPASEI
+DGRGTLPSDGEFDGSGEWIALTTDKKSFVPGMSVAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVNGKVYMALTNNTRRTAVDEANPVVGNRDGHVIELTERGGDHASTRFDWVILLLAGD
+PAVSSSVYFSGFPQEKVSPISCPDNVAFDSAGNLWISTDGQPGAIGFGDALHKVTLDGPE
+RGRVEQFLSVPRDAETCGPVVHDRDNSVFVNVQHPGENGMWGAQTSYFPDYLDPAGPVQV
+GDKVAAPRPSVVQVFDVTGNNGVGKGSGKDKGGKGKGNKGGKGKGPKA
+>3_1003
+MLKRLLPMAGHTRGNRSAVTCELKCGNACSHPIPNTSANETFHSVAERAISRRAALGVGG
+GLAAAVVIGANVAHAPEALADNGLRPAGGGKLDFTAIQPVQRTVDTMTVPEGYDWGTIIR
+WGDPLFADSEEFDIEHQTGASAAGQFGYNNDYLNIISDGGNHRRGYLVSNHEYTNENIMF
+SPEYIASNPEDVVNAGIESHGLSVVELERRKAGAKWEYVRGGRRNRRITGTTPFRVTGPA
+AGHDLLKTVEDPTGTRVLGTLNNCSGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGIST
+SATQRGWERFHDRFDLTKAGYENEAHRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAI
+ISESGHAVVYSGDDERHDYLYKFVSSKKVIEGNKKHNMTLMDEGTLYVAKFTGDSPASEI
+DGKGTLPSDGAFDGSGEWIALASHKKSYVPGMSLAEVLVFTRIAADKMGATKMDRPEDVE
+TNPVNGKVYAALTNNTKRTAVDETNPVIGNRDGHVLEITEKCGDHTSTSFNWVILLLAGD
+PKVSSSAYFAGYPKELVSPISCPDNVAFDSEGNLWISTDGQPGTIGYADALHKVTLDGPE
+RGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHPGEDGNWGAHTSYFPDFLSPNGPVQV
+GDKVAAPRPSVVQVFNATGNNGIGKGSGNKKGNHGKGRGNSAFGHAQGHGPKK
+>4_1649
+MLKRLLPMAGHTRGNRSAVTCELKCGNACAHPVPNTSANPTFQQIAETAISRRSALVGGT
+GLAAAVVIGSQVAQAPEALADNGRRPTGGGKLPFEPIAPVTRTVDTMTVPEGYDWGTVIR
+WGDPLFADSPEFDIEHQTGASQAAQFGYNNDYLNIITDGGNDRSGYLVSNHEYTNENIMF
+SPEYIASNFEDVVNVGLQAHGLSIVELKRAKRGAPWEYVRGGRRNRRITGTTEFEVRGPA
+AGHALLTTVEDPTGTRVLGTLNNCAGGTTPWGTVLSGEENFNQYFKGRGTAEEKRYGIST
+SATRRGWEKVHDRFDLTKPGYENEANRFGWVVEIDPEDPTSTPVKHTLLGRFKHEAGTAV
+ISPSGHAVVYSGDDERHDYLYKFVSAEKVRDGDKKHNMRLMDKGTLYVARFSGDSPAAQI
+DGKGTLPSDGAFDGSGEWIALADEKTSFVPGMSLAEVLVYTRLAADKMGATKMDRPEDVE
+TNPVTGKVYAALTNNTKRTAVDEANPVIGNRDGHVIEITERGGDHTSTTFTWVILLLAGD
+PAVSSSAYFAGYPKEKVSPISCPDNLAFDSEGNLWISTDGQPGTIGYADALHKVTLDGAE
+RGRVQQFLAVPRDAETCGPVIHDRDNSVFVNVQHPGEDGTWGAHTSYFPDFLSPTGPVQV
+GDKVAAPRPCVVQVFNATGNNGIGKGAGKEKGNKGKGNGNGNGKGNGKGNGNGKGPKG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000041.fa

@@ -0,0 +1,48 @@
+>0_1134
+MSSFETPQPPTARRRRRLLPLLSLGAAGLMLATACATGDDGADQPHSDTASASTSAAPER
+AAVGEGQGEPDALTGVTFTEGDGGAPTVEIDGEIDTDQPTTRVLTAGEGEQVQEGDVLKM
+SIAVVDPASGEVVAENFSGEPEAVPVDDQLKSMNPEIHEMLVGSGAGTIVAAYSPEYDVS
+VPQTESASPSASPSTQTQPAQLFVYKIDAILPKQAEGEEVTERDERLPDVTVDEQSGRPS
+IAKPDGEAPQELVVQPLIEGEGHEVGADDTVTVQYEGVTWSDGEVFDSSWETGQAITFSL
+NRVIEGWKEGLAGQKVGSRVLLSIPAEKAYGEQGSPPDIGENEPLLFVVDILDAQASATP
+SAN
+>1_862
+MSSFETPQPPTARRRRRLLPLLSLGAAGLMLATACATGDDGADQPHSDTASASTSAAPER
+AAVGEGQGEPDALTGVTFTEGDGGAPTVEIDGEIDTDQPTTRVLTAGEGEQVQEGDVLKM
+SIAVVDPASGEVVAENFSGEPEAVPVDDQLKSMNPEIHEMLVGSGAGTIVAAYSPEYDVP
+VPQTESASPSASPSTQTQPAQLFVYKIDAILPKQAEGEEVTERDERLPDVTVDEQSGRPS
+IAKPDGEAPQELVVQSLIEGEGREVGADDTVTVQYEGVTWSDGEVFDSSWETGQAITFSL
+NQVIEGWKEGLAGQKVGSRVLLSIPAEKAYGEQGSPPAIGENEPLLFVVDILDAQAPATE
+SAN
+>2_1677
+MTDGTPEIGDAEGEAPSEMVVQPLIRGEGPEVGPDDSVTVNYVGETWSEGTRFDSSWERG
+APISFSLNQVIPGWKEGLAGQPVGSRVLLSIPAEKAYGEQGSPPDIGPNEPLLFVVDILD
+AQAPSTPPTN
+>2_1678
+MSSFQTPETTTPRRRRRLLPLVSLGVAGLFLATACASGQDDTPEPQEDAASASQSAAPER
+AAVGEGQGEPDALEGLSFSEGEDGAPSVEVDGELATDQPTTRVLTAGEGDQVKEGDVLKM
+SIAVVDPASGDVLAENFTGDPESVPVDQQLKSMNPEMHDLLVRNGVGSVVAAYSPEREVP
+APPADGASPSASPPPRPSPPSSSCTRSSRSCPRRPRARRSPSATSGCPRSP
+>3_300
+MRPLLPLALTVLMLSAGLTGCAPSSPLDSVQVEEVTGQAQGRSVKFQTPVAVEEVSIRQL
+RAGTGAELDAGDAIVLKMDLFKGSDGTPIEAPFAGGPGQVIALDDQFKAQVPELHEALLQ
+AQEGTMLAYSSPQTAGAAGDESTAVEIYEVAQKIPTTIEGKTSPVPDGLPPITEDETGAP
+VVGPPQGQVPDELVAEYLIQGGGEPVQAGDTVIVHHLGMRWADAQVFDSSYQRGAPARFV
+LDNVIKGWQKGLIGKRTGSRVVLSVPVDQAYGTEAELGDNAPFPAGDLLFVIDILTTQPT
+PPVPTP
+>3_1575
+MNRAPSSAAAPRRRRPRTALSLSLAGLLLATACGAGESSDGSSSPASASSSAAAQGSEAT
+SSSAAPVEYGDPAALDGLTFTVGADGTPSATVGKAIESDKAVVKTLTKGTGATPKAGDVL
+RLSTALLDPATGKVLNENFTTQPEMVAVGSDPASMNPYVHKAVYGAPVGSDVAVYLPAPS
+SSASAPSGTEAAPAQLAVFRVQGVAEQLPQADERLPKVSVDPATGRPSIEKPTGSAPEEL
+VVEPLIQGEGPEVEDTDTVAVQYQGVTWSDGSTFDSSYERGTPATFSLDQVIAGWKEGLA
+GQKVGSRVLISVPSEKAYGAEGTPDGSIGKDEDLLFVVDILAAQPAAASSPAAPSGSTAP
+SGSSSASPSN
+>4_1084
+MSSFETPQPPTARRRRRLLPLLSLGAAGLMLATACATGDDGADQPHSDTASASTSAAPER
+AAVGEGQGEPDALTGVTFTEGDGGAPTVEIDGEIDTDQPTTRVLTAGEGEQVQEGDVLKM
+SIAVVDPASGEVVAENFSGEPEAVPVDDQLKSMNPEIHEMLVGNGAGTIVAAYSPEYDVS
+VPQTESASPSASPSTQTQPAQLFVYKIDAILPKQAEGEEVTERDERLPDVTVDEESGRPS
+IAKPDGEAPQELVVQPLIEGEGREVGADDTVTVQYEGVTWSDGEVFDSSWETGQAITFSL
+NQVIEGWKEGLAGQKVGSRVLLSIPAEKAYGEQGSPPDIGENEPLLFVVDILDAQASATP
+SAN

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000054.fa

@@ -0,0 +1,63 @@
+>0_2192
+MTLTLSARLERTAAEHPHSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMV
+PNIPAFPVVFFAALQLGAVVVPMNPLFKRREIECYLEDSGASMLWSVPSEEAVEGARERG
+VPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYTSGTTGRPKGAQLTHRNMGTNA
+DTVAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTIGASLALIPRFDPAVAAQTVREH
+AVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFDCEILEGYG
+LSETSPVACFNHPGEEHHPGSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVM
+KGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDRTKDMILRGGLNVYPREIEEVL
+YEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTVR
+DGLPKTATGKILKRELTPAE
+>0_2214
+MGWRFLRGPLNLDPGDVENLDEVRLRGGMNVYPQEIEEVLYEHPALAEAAVVGVPHPELG
+EEVAAYVTLAPGATATEEELVAHVKSQVAPYKYPRSVVAMDGLPKTATGKILKRELKAAR
+>1_1902
+MTLTLPARLERTAAEHPNSTALILGENRMTYAELHDQSQRLAGLMRQEGIGPGDRVALMV
+PNIPAFPVVFFAALQLGAVVVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGARERG
+VPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYTSGTTGRPKGAQLTHRNMGTNA
+DTVAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTMGASLALIPRFDPAVAAQTVREH
+AVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFDCEILEGYG
+LSETSPVACFNHPGEEHHPGSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVM
+KGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDRTKDMILRGGLNVYPREIEEVL
+YEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTVR
+DGLPKTATGKILKRELTPAE
+>2_470
+MTLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMV
+PNIPAFPVVFFAALQLGAVVVPMNPLFKRRQIEYYPEDSGASMLWSVPSEDAVEGARERG
+VPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYTSGTTGRPKGAQLTHRNMGTNA
+DTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVRGC
+AVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSAMPVELLRRFEATFHCEILEGYG
+LSETSPVACFNHPGEEHQPGSIGRAVRGCELQLVTPDGAVVPEGDEETLGEVWIRGENVM
+KGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYSIVDRTKDMILRGGLNVYPREIEEVL
+YEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVSVR
+DGLPKTATGKILKRELTPAE
+>2_475
+MPDVVVPILLERTAAAEPDRTALILGEERLTYAELQDQVHRIAGLLRSQGLGPGDRMAIM
+LPNVLAFPVLFFGALQVGAVVVPMNPLFKTREIQYYLEDSGAVMLWGVPSEEAEAATQAV
+GVPFHALGADGLAPHLTASPGPVTEAAERDPQDDAVILYTSGTTGRPKGAQLTHRNLTSN
+ANTVVETLIHLKAGETILGCLPLFHVFGLTCSMLTCVSVGATLSLIPRFDPTQAIETIRR
+DAVDVFIGVPTMYGAILTVGAEDPSALASLRVAVSGGSSMPVEVLRRFESTFGCQILEGY
+GLSETSPAACFNHPDTDRQPGSIGTPIRGVELRLVTPGGEEVPEGDAETIGEVCIRGENI
+MKGYWGRPDATAEAIDDDGWFHSGDLGRRDAAGNYYIVDRTKDMILRGGLNVYPREIEEV
+LYEHPAVAEAAVVGVPHPELGEDVAAYVVLAPGAEATEAELIAHVKDRVAPYKYPRTVHL
+MDGLPKTATGKILKRELGTAG
+>3_417
+MTLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMV
+PNIPAFPVVFFAALQLGAVVVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGARERG
+VPLRTLGEDGLAPHLAESPGPVTETVERDLEDDAVILYTSGTTGRPKGAQLTHRNMGTNA
+DTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVREC
+AVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSALPVELLRRFEATFDCEILEGYG
+LSETSPVACFNHPGEEHQPGSIGRAVRGCEMQLVTPDGAVVPEDDEETLGEVWIRGENVM
+KGYWGKPEATAQAITEDGWFRSGDIARRDAAGNYYIVDRTKDMILRGGLNVYPREIEEVL
+YEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVRVR
+DGLPKTATGKILKRELTPAE
+>4_2124
+MTLTLPARLERTAAEHPNSTALILGENRMTYAELQDQSQRLAGLMRQEGIGPGDRVALMV
+PNIPAFPVVFFAALQLGAVVVPMNPLFKRREIEYYLEDSGASMLWSVPSEEAVEGAREHG
+VPLRTLGEDGLAPHLAASPGPVTETVERDLEDDAVILYTSGTTGRPKGAQLTHRNMGTNA
+DTAAETLIQLQHGETVLGCLPLFHVFGLTCALMAPVTTGASLALIPRFDPAVAAQTVREC
+AVDVFIGVPTMYGAVLAAAKDHPEDLASLRLGVSGGSALPVELLRRFEATFDCEILEGYG
+LSETSPVACFNHPGEEHQPGSIGRAVRGCEMQLVTPDGAVVPEGDEETLGEVWIRGENVM
+KGYWGKPEATAQAITEDGWFRSGDLARRDAAGNYYIVDRTKDMILRGGLNVYPREIEEVL
+YEHPAVAEAAVVGVPHPELGQEVAAHVVLAPGAHATEEELIQHVKSQVAPYKYPRTVTVR
+DGLPKTATGKILKRELTPAE

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000057.fa

@@ -0,0 +1,61 @@
+>0_33
+MLDEVLAQLRSTGSETALIEVKSAAGGCPRSVRETLSAFANARGGVVVLGLDDSTFEPTG
+ADAPALRDALAGMAADDMTPPVRGVISIENAEGGHQVVVMEVPEFAPDQKPCYITAAGRY
+QGSYTRSDEGDRRLTAYEIDRLIEGQGQPQHDREPVHGATADDLRPDLVEALTGRLRTVQ
+PRAFGSLTDQECLRRANVLVDADGVLVPTLAGLLACGEYPQGFFPQLSISVVVLPGTTFG
+DTGPHGERFVDNRTCEGPLVDMIADARDVLVRHMSRASVIDGTGRADRLEYPLEVIRELL
+VNAVMHRDYSAGARGTQVQVELYPDRLVVRSPGGFFGPVDPSSFGEPDVSSSRNSVLARL
+LSDLPGSDGRMIAENRGSGIPTVLKVLEAAGMVPPEFHSTLTRVEVDVAHDSLLTAETHE
+WIQGLGQDGLTQWQIQALALARSGRTVRNQTLQGWGAHQADATRELSDLVRRGLTVKLGD
+RRGARYTLNPDYVPPAAETGAGGLSERQQAILRALADGPMKATEVGDAVGTSYRTAMNAL
+NDLIEAGLVEPTAPPRSRRRRYRLTPQEETA
+>0_544
+MDVIQLDQTQLMALLSRAEGHFLDYKRTDVAPGKLTRSLAAFCNSDGGDIYVGIAETDGT
+QSWQGAADPEEFNGHLQAFEEVSPFGADWNAEFITAQNESGYVLRINALKSRQVRSDSSG
+KVYKRVGAQNVPVDSEEGLQTLRRLKGLESFEEETLNVDMEEVTNSTHIIKFLVNDPSPT
+DPELYLKRQQLIRGGKPTVASALLFAELPQAMLPKRCGIKIYRYTSSVAHRDQLYSDPVT
+VEGYLYGQIYEAVDQTIDIINQAQFLDVDGLRQVRYPRETLHEVITNAVLHRDYSIQDDI
+HVRIFENRVEVQSPGRLPGHITLKNILEERLSRNGHLVRNINRFVDPPNKDVGEGLNTAF
+ESMRKFNLKEPIIEELENSVMVTIRHQSLASPEQQIMEYLAEHSQIRNQEARNLVGIESE
+SKMKKILQGLVGTGEIEHVPGTAKRGYAYRARAEAAAQEGNR
+>0_2213
+MNWSSDDLTATLDALRARRGDTTSVEVKRATGGVPSMPETLCAFANMPDGGTVVCGVDEA
+HGEFRVVGVPDVAVLEAGLVAQAREAVTPSPTLLPQVFRLEGKDVLVAHVVPLRLTDRPA
+TVRGQAYLRQSDGDYVMHAHELRMVEVAKLHADERVDYDVKPVTGMSEEDLVPELVTDYV
+AAVRERDRRLRDRTHQEILRQTNVLTAAGEPTLAGLYALGDYPQGRYPGLTVTAAVQVRG
+GEGQARSRNLTDFTGPVPVLLDEVMAWVRQNLGTEHVYRPDGQLERRPELPLAAVRELLG
+NALVHRDLGPDTLGAGKAIQVRLTDRALFIQSPGGLRGVSLTQLESDEHAQAAVNQRLYQ
+IAKKLTTPDGASVIEGEGGGIHEVFRSARQWGLGRPQLIDTGVQFKALLWRPRPEGARPS
+RREPAVEVARTPPVEEVPDVKADAPSSAVPPSSAPTRHEGRVLGALAAGEAVGIRDLEEA
+TMLTARQIRYALRQPLLDGLVEMTGGQGHKDTRYRLVSARGAGD
+>2_446
+MANTPGSGALIVGVSKTAELIGTALDREWLRFRLYELTGRALTVDVQEVQVQGARLLVLY
+PPAAVEPIRVEGRIRWRVDDHCAEVDASTWFTRQMYRRQYDWSAETSNVPAGEARPAAVD
+IARAFLYDSGDERGEELAEAETPQLLRRLNVVAEGGMLTNAGVLAFVGRPEPALDYTHHE
+VAGADSSIRVHRGGRSLLEELADVLQAFEARNTVRHVQSGLTIGQLRDIPRLAAREALVN
+GLAHREWGDPGATRVEHIGRTLRVTSPGGFFGGVDPSNIITHPSVSRNPALTQLLADLRV
+AERQGIGVDRMVREMVRVGHPQPGIEEVAGPYVRTTLVGETLDEPWMAWLSQVQPRPLTR
+DVSAVLILRHLVDRVWIDEMTAAALTQVSRAESRSMLERLHTATVGGGTILEAVSGVPDA
+VPQAWRLGEAAAQLLAALDQETGIQRTVPDRRALAADYARARGRISTTELASLVGGHASN
+MGAPLRALETEGFLEPSNASRRGRGFFYRWVGDEPA
+>3_410
+MDLGPLLAAGETLDVEFKRRLGKDDLYQAVVCMANGIGGRILVGVDDDGTVVGTTADHGG
+AVDADLLAGRIQNGIEPPLSVDVEVVPWEGKDVAVITVPQAKSSFVGTRKGLFVKRVVGP
+DGRPACMPMTPMDVLRAGFDGVGLDYARAEARGAEWGHLDPTEFDRFRRLAGQSAGDSGL
+AELTDAELLRTLDLLTPDGGISLGAVLVFGTSEALRRWAPTAEVLFQDSRPHGVEANEDL
+LLPLLNAFEEIETRLALRNSITPVEVGLVRVDVPLLAESVRRESIANALVHRDYAEAGPI
+QVTLTGSTFSVASPGGFPRDVSPANILNRSAPRSPALANVFKRAGLVERRGKGVQDMFAS
+QLRAGRGAPDYSRSTHRSVIVDIPLGDEDRELLIFLARRQNEGQRALTLTELRVVHEIKH
+GGPAGAAEAAERLRLPVADVRAAATALVEAGVLESRGNGRAQRYMLTARFYELAEDRAAY
+LRLRPVDRIQQRRLIADYIREYGSITRGKAAELCQIAPTAARAVLKGMTEEGLLELRGER
+RAAHYVLPDS
+>4_2148
+MRRGDTTNVEVKRAAGGVPQLAETLCAFANMPEGGTIILGVDEARGAFNVTGVADVALLE
+AGVAAQAREGVTPSPQIIPQTLQLDERQVLLIHVVPLRTADKPATVQGVAYLRQSDGDYR
+MHEHELRMLEVAKLHADERVDYELKVATGLGEQDLVSSLVDEYVAAVRRKNRRLRDRTSE
+EILRQTSVLTSSGEPTLAGLYALGDFPQGRFPGLTVTAAVQLPGGEGQPRNRNLEDFVGP
+LPDLLRDLMAWVSDNIDTVRRYRRDGHMEEVAELPLTAVRELLANALVHRDLGPSTLGMG
+KGVQVRLTPRNLFIQNPGGLQGLSLTQLQSDDHAQAAVNQRLYQFAKKLTTSDGASLIEG
+EGGGIREVFRAAERQGLPRPQLIDTGVQFKAILWRAADRNARAGVEDAKGASAVETAVPR
+AVPASASPTRHEHAVLAALVRMPDGATLRALTSVTGLTDRQVRYALRLPLDEGIVVMDGG
+QGNRQTAYRLMSDSRRP

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000059.fa

@@ -0,0 +1,38 @@
+>0_49
+MRADLTLIPTSRVPGCGSGHPTARPRYGDPVRPTSPRPAPAYLTDSVPARRGHPLGFAHR
+GAAVDRENSLAAFVDAHAAGFTYLELDVRTTADGELLVFHDDTLDRVSTGRGRLRDHTWE
+RLADVTVGGEPLLRFTELLTALPEARLNVDLKDRASAPALARILAEHGAWDRVLVASFHD
+SRRRLFRRALARLGHPERAYGPERVATSGGAAAIAALVTLGPLGLTRWLRRCALDVDCVQ
+VPVRHGRVPVATADFVRRCHAAGLPVHVWVVDEPAEIERLLDLGVDGVMTDRADVLAEVY
+ARRGFWPQR
+>1_2013
+MRPTSPRPAPAYLTDSVPARRGHPLGFAHRGAAVDRENSLAAFADAHAAGFTYLELDVRT
+TADGELVVFHDETLDRVSTGRGRLRDHTWERLADVTVGGEPLLRFTELLTALPEARLNVD
+LKDRASAPALARILAEHGAWDRVLVASFHDSRRRLFRRALARLGHPERAYGPERVATSGG
+AAAIAALVTLGPLGLTRWLRRCALDVDCVQVPVRHGRVPVATADFVRRCHAAGLPVHVWV
+VDEPAEIERLLDLGVDGVMTDRADVLAEVYDRRGFWPQR
+>2_331
+MTRRPPSSRHRPAPAYLADSAPGREGWPLGFAHRGADVGRENSLAAFQAAHDAGFAYLEL
+DVRTTSDGELVVFHDETLERVTTGRGRLQEHTWHGLTEVHVGGEPLLRFADLLAALPEAR
+LNVDLKDRAAAPAMARLLAEHEAWERVLVASFHDSRRRAFRRALAALGHEDRAFGPGRVA
+TSGGVAAIAALVALGPVGLTRWLARHALDIDCVQVPVRHGRVRVVTADFVRRCHAAGLPV
+HVWVIDEPDEMHRLLDLGVDGIMTDRADVLADVFTTRGIWPQR
+>3_270
+MEDSSGSLAASSIRPPSSGPSSTPPPARPAPAYLADSAPGREGWPLGFAHRGADVGRENS
+LAAFQAAHDAGFAYLELDVRTTSDGELVVFHDETLERVTTGRGRLQEHTWHGLTEVHVGG
+EPLLRFADLLAALPEARLNVDLKDRAAAPAMARLLAEHEAWERVLVASFHDSRRRAFRRA
+PAALGHEDRAFGPGRVATPGGAAAIAALVALGPVGLTRWLARHALDVDCVQVPVRHGRVR
+VVTADFVRRCHAAGLPVHVWVIDEPDEMHRLLALGVDGIMTDRADVLADVFTTRGIWPQH
+>3_279
+MRIRAATTSPALRPAPAYLAASAPARRGWAVGFAHRGAGNERENTLAAFTAAWEAGFRYL
+ELDVRTTSDGVLVVFHDATLDRVSTAAGDFSALAWADFAAHTVGGEPFLRFADLLAALPE
+ARFNVDLKDADAAPAMAALLAEHDAWDRVLVASFHDSRRRAFRRAVAALGHPERAHGPER
+VATSGGAAAIAALVLLGPLGLTGWLRRHALDIDCVQVPLHQGRVPVVTADFVRRCHAAGL
+PVHVWVVDDPAEMERLLDLGVDGIMTDRADVLAEVFTRRGIWPQR
+>4_44
+MRADLTLIPTSRVPGCGSGHSAVRPRYGDPVRPTSPRPAPAYLTDSVPARRGHPLGFAHR
+GAAVDRENSLAAFVDAHAAGFTYLELDVRTTADGELVVFHDETLDRVSTGRGRLRDHTWE
+RLADVTVGGEPLLRFTELLTALPEARLNVDLKDRASAPALARILAEHGAWDRVLVASFHD
+SQRRLFRRALARLGHPERAYGPERVATSGGAAAIAALVTLGPLGLTRWLRRYALDVDCVQ
+VPVRHGRVPVATADFVRRCHAAGLPVHVWVVDEPAEIERLLDLGVDGIMTDRADVLAEVY
+ARRGLWPQR

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000064.fa

@@ -0,0 +1,61 @@
+>0_114
+MLLKLIEPTSGEISFEGRDVLALKGEGLKDFRQRVQAVFQDPFSSLNPSFTVGRIIEEPL
+QTYRRGNATQRRARVLELMDQVALPSHFHRRYPAELSGGQRQRVAIARALALNPELIVCD
+EPVSALDVLVQDQILTLLRRLQDELGLRSYLFISHDLAVVRLISDYVCVMKDGRVVEAAS
+SEEVFTNPRHPYTRRLLASIPGNELGIAVEADGTHV
+>1_2081
+MDPKHDDGAPGPGAAPAVPAAGAPLLEIRDLDVEFTTQQGTVQAVEGASLTLPAGGTLAI
+VGESGSGKSTTAMAAIGLLPGNGRVTAGSVRFAGEELVGLPESRMRRIRGRRIGLVPQDP
+MSNLNPVTRVGQQIGETLLTHGMATKKDVGAAVVEVMERAGIPEPARRAKQYPHELSGGL
+RQRVLIAIGLACRPQLLIADEPTSALDVTVQQVILDQIGEMTRELGSSVLLITHDLGLAA
+ERAQQLVVMHRGRVVESGDARAILEDPQHAYTRSLVAAAPSVAAARLLPEAFDPAPVALA
+EDDTAALTTVALAKQDLTPLVEIRDLTKVYPVRGHEDFIAVKDVSLKIPRGKTVSIVGES
+GSGKTTTARMLLKLIEPTSGEITFEGRDVLALKGEGLKDFRQRVQAVFQDPFSSLNPSFT
+VGRIIEEPLQTYRRGNATQRRARVLELMDQVALPSHFHRRYPAELSGGQRQRVAIARALA
+LNPELIVCDEPVSALDVLVQDQILTLLRRLQDELGLSYLFISHDLAVVRLISDYVCVMKD
+GEVVEAASSEEVFTNPRHPYTRRLLASIPGNELGIAVEADGTHV
+>2_79
+MTAALTTRENTAPAAEPAGARIPVAELRNLRVGFDDGAGGTRAVVHGVDLRIEPGQCVAI
+VGESGSGKSVTARTLVGLTGAGSRVSADLARLGEDDVLALDERAWRRRRGVRVGYILQDA
+LVSLDPLRTVGAEIGDVLRLHGVSDRGERRRRAADLLAEVGVPEPQVRLDQRPGELSGGL
+RQRALIASAVALQPELVIADEPTTALDVSVQVQVLELLSRLKSSGTAVLLISHDFAVVSR
+LADHVLVMEGGRIVESGPVRRILDAPEHPYTRRLLAAIPSGDTRGQRLSPEPRAVVTHAP
+LVAAPTAQGGPTLAARGLTKRYRGPDGRDRTVVDDVSFDVFAGQTLGIVGESGSGKSTTA
+AMALGLVQPDAGTVELDGRPWSGVSARARRARRRQVAVVYQDPLSSFDPRWNGERILADA
+AGAGVPPWASPARRRAARDDARARAVDLARLVGLDPRHLTRSPARLSGGQRQRLAITRAL
+AVQPRVLVLDEAVSALDVSVQAQVLDLLGDLKEGLGLTSLFISHDLGVIHHVSDRILVMK
+DGRAVEQGDADQVFHAPRHEYTRGLLASLEQLSIR
+>2_252
+MDPKHDDGALGAGSHAAAPEAAPTAGTDPAGVGSAEMPAPGAPLLEIRDLDVEFRTQQGT
+VKAVEGASLTLPAGGTLAIVGESGSGKSTTAMAAIGLLPGNGRVTGGSVKFAGEELVGLS
+DAKMRRIRGRRIGLVPQDPMSNLNPVTRVGQQIGETLLTHGLATKKDVGAKVVEVMERAG
+IPEPARRAKQYPHELSGGLRQRVLIAIGLACRPQLLIADEPTSALDVTVQQVILDQIDEM
+TRELGSSVLLITHDLGLAADRAQQLVVMHRGRVVESGDARAILEDPQHAYTRSLVAAAPS
+VAAARLLPEAFDPAPSALKEDDTAALSTVALAKKDLTPLVEIRDLTKVYPVRGHDDFTAA
+KDVSLKIPRGKTVSIVGESGSGKTTTARMLLKLIEPTSGEITFEGKDVLGMKGEDLKDFR
+QRVQAVFQDPFSSLNPSFTVGRIIEEPLQTYKRGNAKERRARVLELMEQVALPSHFHRRY
+PAELSGGQRQRVAIARALALNPELIVCDEPVSALDVLVQDQILTLLRRLQDELGLSYLFI
+SHDLAVVRLISDYVCVMKDGEVVEAASSEEVFTNPRHPYTRRLLASIPGNELGIAVEADG
+EHV
+>3_127
+MSIPKSPTSTLPSAVAPAPALSVHGLDVDYAGRHGQAPALRDVRLEVPAGGTLAVVGESG
+SGKSTLARVLLGLSAANARIRSGRIHVAGQTVDAADTDALARLRGRCIGFVPQDPVTGLN
+PVRTIGEQVVAAVRTHTRLRVDDAYGRAEALLAEAGVDRPGHRLGQFPHELSGGLRQRVL
+IALALAGDPEVIVADEPTSALDATVQQQVLDRLGLLQERTGAALVLITHDLAVAAGRAER
+IVVMRQGRIVEAGPAEQIAQSPQDSFTRRLVAASPGRRPTARVLAAPDVEAGPGADPAPV
+VRVRGLRHEYPGVHGSAPHVAVDGVDLDIRAGETLALIGESGSGKTTTGRLVLGLETVRE
+GSVQIRGVETAGVGGRAWRRARRHLQTVHQNPFASLDPRQTVERIVAEPLRAFSVGSRTE
+RRDRVTELLERVSLPAATASRRPGELSGGQRQRVAIARALALDPDVLVCDEPTSALDVSV
+QAQVLELLARLQDEQGLACLFITHDLRVVWDIAHRVAVMRDGRILETAATERLFRAPEHP
+YTAELLAAAGVTAPLTGTQTSAGTMTPAGARALVGRP
+>4_122
+MDPKHDDGAPGPGAAPAVPAAGAPLLEIRDLDVEFTTQQGTVQAVEGASLTLPAGGTLAI
+VGESGSGKSTTAMAAIGLLPGNGRVTAGSVRFAGEELVGLPESRMRRIRGRRIGLVPQDP
+MSNLNPVTRVGQQIGETLLTHGMATKKDVGAAVVEVMERAGIPEPARRAKQYPHELSGGL
+RQRVLIAIGLACRPQLLIADEPTSALDVTVQQVILDQIGEMTRELGSSVLLITHDLGLAA
+ERAQQLVVMHRGRVVESGDARAILEDPQHAYTRSLVAAAPSVAAARLLPEAFDPAPVALA
+EDDTAALTTVALAKQDLTPLVEIRDLTKVYPVRGHEDFIAVKDVSLKIPRGKTVSIVGES
+GSGKTTTARMLLKLIEPTSGEITFEGRDVLALKGEGLKDFRQRVQAVFQDPFSSLNPSFT
+VGRIIEEPLQTYRRGNATQRRARVLELMDQVALPSHFHRRYPAELSGGQRQRVAIARALA
+LNPELIVCDEPVSALDVLVQDQILTLLRRLQDELGLSYLFISHDLAVVRLISDYVCVMKD
+GEVVEAASSEEVFTNPRHPYTRRLLASIPGNELGIAVEADGTHV

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000065.fa

@@ -0,0 +1,33 @@
+>0_167
+MTPPAALLLDLDGTLLDHGRAARIALGQAMQEAGLTDADHSSALLLWGELERIHFQEYLD
+GQTTFEEQRVRRVRAFLAHYGRTRLDRTSALAWFDTYRTAYERAWS
+>0_824
+MSRDASTTPAGGSAGAPAPPAWDAVLFDLDDTLLDLRSAQHAAFDATVRRQWAGAADVDP
+AVLAEATDAFASDAGGHYGRYVAGELTFEEQRLARVADALRALGVPEDAATPLDGLWTTD
+YEEVVRGHWALFPATADVLAEVRGTGRGVGIVTNNVEAYQRGKADALGLEWVEVLIGSDT
+AGAPKPDPAPFLAGCSRLGTDPGRTLMVGDSLRHDVEGARSAGLVPVWMSPDAPAHGGAE
+EPLWDEEHACWRMRAIGGLRTWLAA
+>1_555
+MSRGASTTPADGSAGAPAPPAWDAVLFDLDDTLLDLRSAQHAAFDATVRRQWAGAADVDP
+AVLAEATEAFASDAGGHFGRYVAGELTFEEQRLARVADALRALGVPEDAATPLDGLWTTD
+YEEVVRGHWALFPATADVLAEVRGTGRGVGIVTNNVEAYQRGKADALGLEWVEVLIGSDT
+AGAPKPDPAPFLAGCSRLGTDPGRTLMVGDSLRHDVEGARSAGLVPVWMSPDAPAHGGAE
+EPLWDEEHACWRMRAIGGLQTWLAA
+>2_2034
+MSGAPATGQATTTAAGGSPSSPAPAPPEWDAVLFDLDDTLLDLRAAQHAAFDATVRRQWA
+GAADVDPARMAEATEAFASDAAGHYERYVAGELTFEQQRLARAADALRALGAPEESATPL
+EALWTADYEDVVRGHWALFPATAEVLAQVRSSGRGVGIVTNNVEAYQRAKADALGLEWVD
+VLIGSDTAGAPKPDPAPFLAGCARLGAEPGRTLMVGDSLTHDVAGARAAGLVPVWMSPAA
+PARGAAEDPVWDPERGCWRLRAIGGLRAWLRR
+>3_1928
+MIRTPGTPSAPVVDGVLFDLDDTLLDLRGAQLPAFAETVRAQWPDAPPAEAGVFVRAADH
+FAADRSGHYQRYIAGELDFAGQRLARARDALAVLGAPGAVAEPDPALWTDEYEVRVRAHW
+ALFDDVVPTLATLRSSGVALGIVTNNVEAYQRAKADALGLEAITVLVGSDSAGAPKPDPA
+PFLEACRRMGTTPGRTACVGDSLSHDVRGARAAGLVPVWLRRGAGAADGGGEGRWDAAEG
+AWTIGGLGALAAWFPGSGADLASGREVL
+>4_783
+MSRGASTTPADGSAGAPAPPAWDAVLFDLDDTLLDLRSAQHAAFDATVRRQWAGAADVDP
+AVLAEATEAFASDAGGHFGRYVAGELTFEEQRLARVADALRALGVPEDAATPLDGLWTTD
+YEEVVRGHWALFPATADVLAEVRGTGRGVGIVTNNVEAYQRGKADALGLEWVEVLIGSDT
+AGAPKPDPAPFLAGCSRLGTDPGRTLMVGDSLRHDVEGARSAGLVPVWMSPDAPAHGGAE
+EPLWDEEHACWRMRAIGGLQTWLAA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000071.fa

@@ -0,0 +1,54 @@
+>0_227
+MALSVLDLFSIGIGPSSSHTVGPMRAARRFTDSMGQHGVLERTARVHAELFGSLAATGVG
+HGSDTAVLLGLAGQDPETIDPDACTGLVAEIVTGGRLPLDGRHEIAFDRQADLTLHMRES
+LPGHPNGMRLTAYDDAGEQLHTRDYYSVGGGFVVTSDELEAELDATKDVNRTDDGDTGEP
+YPFSTGAELAARCREAGLSIAELMLANEATRHDLDELRTQLLAIWAVMEECVHNGVTRTE
+PILPGGLQVRRRAPALREHLLQTTDRTDPMWAMEWVNLFALAVNEENASGGRIVTAPTNG
+AAGIIPAVMLYYMRFVLPEGATQQERDDKVVEFLLTAAAIGILYKRNASISGAEVGCQGE
+VGSACSMAAGALCAVLGGTVDQVENAAEIGIEHNLGLTCDPVGGLVQVPCIERNAIASVK
+AINAARLALLGDGSHRVTLDQAITTMRDTGADMKSKYKETSRGGLAVNVIEC
+>1_90
+MALSVVDLFSVGIGPSSSHTVGPMRAGRRFALGLVERGLVDATERIHVQLFGSLSATGHG
+HGSDRAVLLGLEGEDPETVDTDRANARVESMKAERRLALAAGAEQGGKDLDFDPDADLVM
+HRRRSLPYHPNGMSFTAYDGSGEVVVERVYYSVGGGFVVDDEAAGADRVVEDATEPPLPF
+SSGRELLNHCDREGISIPELMRRNEEAFRPWEAARAALLNTWRVMQECVEAGCEATGTLP
+GGLKVPRRAALLKEQLEVSAPRDGSAPPRDGGAPDALGAMEWVNLYALAVNEQNASGGRI
+VTAPTNGAAGIIPAVLHYWRDFLAREMTAEHIEDGVVDFLLTAAAIGILIKENASISGAE
+MGCQGEVGSACSMAAAGLCQLLGGTPQQVENAAEVGIEHNLGLTCDPVGGLVQIPCIERN
+AIASVKAINAARLCRRGDGRHTVSLDQAIKTMRETGQDMKVKYKETSRGGLAVNVIEC
+>1_2191
+MALSVLDLFSIGIGPSSSHTVGPMRAARRFTDSMGQHGVLERTARVHAELFGSLAATGVG
+HGSDTAVLLGLAGQDPETIDPDACTGLVEEIVTGGRLPLDGRHEIAFDRQGDLTLHMRES
+LPGHPNGMRLTAYDDAGEQLHTRDYYSVGGGFVVTSDELEAELDATKDVNRTDDGDTGEP
+YPFSTGAELAARCHEAGLSIAELMLANEATRHDLDELRTRLLAIWAVMEECVHNGVSRTE
+PILPGGLQVRRRAPALREHLLQTTDRTDPMWAMEWVNLFALAVNEENASGGRIVTAPTNG
+AAGIIPAVMLYYMRFVLPEGATQQERDDKVVEFLLTAAAIGILYKRNASISGAEVGCQGE
+VGSACSMAAGALCAVLGGTVDQVENAAEIGIEHNLGLTCDPVGGLVQVPCIERNAIASVK
+AINAARLALLGDGSHRVTLDQAIKTMRDTGADMKSKYKETSRGGLAVNVIEC
+>2_126
+MALSVLDLFSIGIGPSSSHTVGPMRAARRFTQSMDQHGVLERTARVEAELFGSLAATGIG
+HGSDTAVLLGLAGQDPETIDPDACVGLVDEILQGGRMPLDGRHEIAFDRQKDMTLHMRRT
+LPGHPNGMRLTAFDADGEQLHTRDYYSVGGGFVVTSDELEAELDESRDVSRHDDGEGGEP
+YPFATGAELAGRCRTNGLSIAELMLANEATRHDLGELRTQLLAIWDVMQECVHNGVTRTE
+PILPGGLKVRRRAPALRAHLLETTDRTDPMWAMEWVNLFALAVNEENASGGRIVTAPTNG
+AAGIIPAVLHYYMRFVLPQDATQQERDDKVVEFLLTAAAIGILYKRNASISGAEVGCQGE
+VGSACSMAAGALCAVLGGTVDQVENAAEIGIEHNLGLTCDPVGGLVQVPCIERNAIASVK
+AINAARLALLGDGSHRVTLDQAIKTMRDTGADMKSKYKETSRGGLAVNVIEC
+>3_91
+MALSILDLFSIGIGPSSSHTVGPMRAARRFTYALERDGLVERTARVKGELFGSLSATGVG
+HGSDMAVILGLCGNDPETIDPEAAAPQVQACVEGGTLPLDGTHEIPFDRPKDLVLHMRRS
+LPGHPNGMRLTAFDADGAELLTRDYYSVGGGFVVTGEELEAELDETRDVSRHGEEPEPHP
+FSTGADLIAQCEIHGLSIADVVRANEAARGDLADVEAKVLEIWDVMQECVAHGIHRTEPI
+LPGGLKVKRRAPGLHAQLLEKGTDGAEKDPMWAMEWVNLFALAVNEENASFGRIVTAPTN
+GAAGIIPAVLHYYDRFVLPPGTPAEERRAKILDFLFTAAAIGILFKRNASISGAEVGCQG
+EVGSACSMAAGALCAVLGGTPLQVENAAEIGIEHNLGLTCDPVGGLVQVPCIERNAIASV
+KAINAARLALVGDGDHRVTLDQAIQTMRETGADMKSKYKETSRGGLAVNVIEC
+>4_228
+MALSVLDLFSIGIGPSSSHTVGPMRAARRFTDSMGQHGVLERTARVHAELFGSLAATGVG
+HGSDTAVLLGLAGQDPETIDPDACTGLVEEIVTGGRLPLDGRHEIAFDRQGDLTLHMRES
+LPGHPNGMRLTAYDDAGEQLHTRDYYSVGGGFVVTSDELEAELDATKDVNRTDDGDTGEP
+YPFSTGAELAARCHEAGLSIAELMLANEATRHDLDELRTRLLAIWAVMEECVHNGVTRTE
+PILPGGLQVRRRAPALREHLLQTTDRTDPMWAMEWVNLFALAVNEENASGGRIVTAPTNG
+AAGIIPAVMLYYMRFVLPKGATQQERDDKVVEFLLTAAAIGILYKRNASISGAEVGCQGE
+VGSACSMAAGALCAVLGGTVDQVENAAEIGIEHNLGLTCDPVGGLVQVPCIERNAIASVK
+AINAARLALLGDGSHRVTLDQAIKTMRDTGADMKSKYKETSRGGLAVNVIEC

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000087.fa

@@ -0,0 +1,60 @@
+>0_467
+MTVTAEREKALLESVPTGLLIDGEWRDASSGKTFDVKDPATGKVIASLQDANSDDAMAAF
+DAACAAQADWARTPAKERADILRRAYDLINERAEDFALLMTLEMGKPLAEARGEVTYGNG
+FLRWFSEEAGRHYGRTLTVPEGTLRMQVHHRPVGPCLLITPWNFPLAMATRKVGPAVAAG
+CTMVLKAAKLTPLTTQLFAQVMQEAGLPKGVLNVVAGSSASSISSPILQDRRLRKVSFTG
+STPVGVRLMKDAADNVLRTSMELGGNAPLIVFEDADLDAAVEGAFAAKMRNMGEACTAAN
+RFLVHEDVAEEFTQKFVAKLEALKPLRGTDPESTLGPIVDEGARDDIDQLVQDAVAAGGE
+VLTGGHKIEGDGYFYAPTAIKVEKGNPILQQEIFGPVAPIVTFSSEEEAIEMANDTEYGL
+ASYVFTKDQARMYRVAESIEFGLMGYNVGVISNPAAPFGGVKQSGLGREGGAEGIEEYTS
+VQYIGIADPWAATKA
+>1_197
+MTVTAEREKALLESVPTGLLIDGEWRDASSGKTFDVKDPATGKVIASLQDANSDDAMAAF
+DAACAAQADWARTPAKERADILRRAYDLINERAEDFALLMTLEMGKPLAEARGEVTYGNG
+FLRWFSEEAGRHYGRTLTVPEGTLRMQVHHRPVGPCLLITPWNFPLAMATRKVGPAVAAG
+CTMVLKAAKLTPLTTQLFAQVMQEAGLPKGVLNVVAGSSASSISSPILQDRRLRKVSFTG
+STPVGVRLMKDAADNVLRTSMELGGNAPLIVFEDADLDAAVEGAFAAKMRNMGEACTAAN
+RFLVHEDVAEEFTQKFVAKLEALKPLRGTDPESTLGPIVDEGARDDIDQLVQDAVAAGGE
+VLTGGHKIEGDGYFYAPTAIKVEKGNPILQQEIFGPVAPIVTFSSEEEAIEMANDTEYGL
+ASYVFTKDQARMYRVAESIEFGLMGYNVGVISNPAAPFGGVKQSGLGREGGAEGIEEYTS
+VQYIGIADPWAATKA
+>2_2404
+MTVTAEREKALLESVPTGLLIDGEWRDASSGKTFDVKDPATGKVIASLQDANSDDAMAAF
+DAACAAQADWARTPAKERADILRRAYDLINERAEDFALLMTLEMGKPLAEARGEVTYGNG
+FLRWFSEEAGRHYGRTLTVPEGTLRMQVHHRPVGPCLLITPWNFPLAMATRKVGPAVAAG
+CTMVIKAAKLTPLTTQLFAQVMQEAGLPKGVLNVVAGSSASSISSPILQDRRLRKVSFTG
+STPVGVRLMKDAADNVLRTSMELGGNAPLIVFEDADLDAAVEGAFAAKMRNMGEACTAAN
+RFLVHEDVAEEFTQKFVAKLEALKPLRGTDPESTLGPIVDEGARDDIDQLVQDAVAAGGE
+VLTGGHKIEGDGYFYAPTAIKVEKGNPILQQEIFGPVAPIVTFSSEEEAIEMANDTEYGL
+ASYVFTKDQARMYRVAESIEFGLMGYNVGVISNPAAPFGGVKQSGLGREGGAEGIEEYTT
+VQYIGIADPWAAVKA
+>3_2287
+MTVTAEREKALLESVPTGLLIDGEWRDASSGKTFDVKDPATGKVIASLQDANSDDAMAAF
+EAAVAAQADWARTPAQERADILRRAYDLINERAEDFALLMTLEMGKPLAEARGEVVYGNG
+FLRWFSEEATRHYGRTMIMPDGKLRMQVHHKPVGPSLLITPWNFPLAMATRKVGPAVAAG
+CTMVLKAAKLTPLTTQLFAQVMLEAGLPKGVLNVVSGSSASAISGPILEDPRLRKVSFTG
+STPVGVRLMQDAAKNVLRSSMELGGNAPLIVFEDADMDKAVDGAFAAKLRNMGEACTAAN
+RFLVHESVAEEFTRRFVERLEALKPLRGTDPESTLGPIVDEGARDDIHALIEEAVAAGGE
+ILTGGHKIEGDGYFYAPTALKVGKDNPILKKEIFGPVAPIVTFSTEEEAIQMANDTEYGL
+ASYVFTEDNARMHRVTEQIDFGIVGYNVGVVSNPAAPFGGVKQSGLGREGGAEGIAEYTT
+VQYIGIEDPFAGR
+>4_466
+MTVTAEREKALLESVPTGLLIDGEWRDASSGKTFDVKDPATGKVIASLQDANSDDAMAAF
+DAACAAQADWARTPAKERADILRRAYDLINERAEDFALLMTLEMGKPLAEARGEVTYGNG
+FLRWFSEEAGRHYGRTLTVPEGTLRMQVHHRPVGPCLLITPWNFPLAMATRKVGPAVAAG
+CTMVLKAAKLTPLTTQLFAQVMQEAGLPKGVLNVVAGSSASSISSPILQDRRLRKVSFTG
+STPVGVRLMKDAADNVLRTSMELGGNAPLIVFEDADLDAAVEGAFAAKMRNMGEACTAAN
+RFLVHEDVAEEFTQKFVAKLEALKPLRGTDPESTLGPIVDEGARDDIDQLVQDAVAAGGE
+VLTGGHKIEGDGYFYAPTAIKVEKGNPILQQEIFGPVAPIVTFSSEEEAIEMANDTEYGL
+ASYVFTKDQARMYRVAESIEFGLMGYNVGVISNPAAPFGGVKQSGLGREGGAEGIEEYTS
+VQYIGIADPWAAAKA
+>4_1499
+MTPTPDPTATQYIDGAWVPSSDGGTRTIHCPADGSEVGVVAEGTREDALAAIAAARRAFD
+SGEWSSTPAAERGDLLIRLADHILEHRDEFARAEALDTGKRLVEAEGDMADIAACFRYFG
+KIADQNPGRLVDAGDPTVLSRVVTEPVGVCGMITPWNFPLLQAAWKIAPALAAGCTFVLK
+PAEQTPHTAILTMRALESLGLPAGVANLVLGPGATVGEPLSSHPDVDLVSFTGGLATGKT
+IAQAAAGTVKKVALELGGKNPNVIFPDAHYEAALDNALNAAFTDSGLVCSAGTRLIVHES
+IAERFVDDLVERAGHIVMGGPFDEHAETGPLISAAHRDKVTDYVRRGVEAGARLRVGGHW
+GGEEHKDGFFYAPTVLDRCDRDNPAVIEEGFGPVITVETFSTEAEAIEIANHTEYGLAGA
+VWSSDAGTCQRVSRALRHGTVWINDYHPYLPQAEWGGFKASGIGRELGPTGLGEYVEHKH
+IYQNTEPAVTGWFADRR

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000102.fa

@@ -0,0 +1,37 @@
+>0_630
+MTSAVSTSPAPPRGGRDLKSAVLVGVGLLATALVGLFWLDWLLVLLVVALLVGAVSEIAT
+AVRGIGLDVPRPPLWVAAAVLPLTAWRWGVPALFIALVACLALVAVWTALTRRRPAGQFM
+LAGVFIVLWAPFLLSFAAALLDEPLGHRMVAVLLLMVVSNDTFGYIVGYRFGRTPIAPRI
+SPKKSWEGLAGSLAGSVLVGVVAVPLLVGQPWWVGAVLGVTTVAAATSGDFSESMVKREL
+GIKDMSSALPGHGGVMDRLDSLVFAAPVAYTVLALPLT
+>1_376
+MTSAVSTSPAPPRGGRDLKSAVLVGVGLLATALVGLFWLDWLLVLLVVALLVGAVSEIAT
+AVRGIGLDVPRPPLWVAAAVLPLTAWRWGVPALFIALVACLALVAVWTALTRRRPAGQFM
+LAGVFIVLWAPFLLSFAAALLDEPLGHRMVAILLLMVVSNDTFGYIVGYRFGRTPIAPRI
+SPKKSWEGLAGSLAGSVLVGVVAVPLLVGQPWWVGAVLGVTTVAAATSGDFSESMVKREL
+GIKDMSSALPGHGGVMDRLDSLVFAAPVAYTVLALPLT
+>2_152
+MVGLLGPTAGGLLLGVVGVLAAASVIAAVLRARMGARNPELIGNLVQRIGAWWAMVAVLA
+AVLALGETATLLLFLVLTWLSLREFLTISPTGRADHRTLVWLFFVVTPLHYWFVWEHWYG
+MFSVFIPVYAFLFLPVRAALAGRTEGFLRRAAAVQWAAMVCVYAVSHIPAVLQLPVAMEH
+GRHMAEGSAPGSGDEAGALLLLFLLLVVQGSDVFQYVWGKTLGRRPIAPSVSPNKTWEGF
+VGGVLTATALGAALSFLTPFPWWVAALFAFVSCLLGFGGGLVMSAIKRDRGIKDFGSLIP
+GHGGIMDRIDSLVFAAPVFFHLVRFFYA
+>2_2257
+MTTAVSTPAPPRGGRDLKSAVLVGVGLLVLALVGLVWLDWLLVLLVVALLVGAVTEVATA
+VRGIGLQVPRPPLWAAAVALPVSAWLWGVPALFVALAACLALLAVWTALTRHRPTGQFML
+AGVFIVLWAPFLLSFAVAMLDQPRGNLLVAITLLMVVSNDTFGYIVGYRFGRTPIAPRIS
+PKKSWEGLAGSLAGSALVGVVTVPLFVGQPWWVGAILAVTTVAAATSGDFSESMVKRELG
+IKDMSSALPGHGGVMDRLDSLVFAAPVAYTVLALPLT
+>3_2113
+MTPDATAPSPPRGGRDLRSAVLVGVGLLGTALVGLVWLPWLLVLLVVSLLVGAVNEVAVA
+IRQIGLDVPRPPLWVGATVMPLAAWTGGIPALFLALMASLVLMFAWTAVTRRRPTGQFML
+AGTFVLLWAPFLLSFAAALLDQPAGHMMVVCLVLMVVSNDTFGYMVGYRWGRTPIAPRIS
+PKKSWEGALGSLAGSVAVGSVLVPVLVGHPWWAGALLGALTVGAATAGDFSESMVKRELG
+IKDMSSALPGHGGIMDRLDSLVFAAPVAYAVLALPLS
+>4_600
+MTSAVSTSPAPPRGGRDLKSAVLVGVGLLATALVGLFWLDWLLVLLVVALLVGAVSEIAT
+VVRGIGLDVPRPPLWVAAAVLPLTAWRWGVPALFIALVACLALVAVWTALTRRRPAGQFM
+LAGVFIVLWAPFLLSFAAALLDEPLGHRMVAVLLLMVVSNDTFGYIVGYRFGRTPIAPRI
+SPKKSWEGLAGSLAGSVLVGVVAVPLLVGQPWWVGAVLGVTTVAAATSGDFSESMVKREL
+GIKDMSSALPGHGGVMDRLDSLVFAAPVAYTVLALPLT

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000123.fa

@@ -0,0 +1,56 @@
+>0_1224
+MSAESSPLSAAAVDPEERRLEAALRPKHLDEFVGQMRVREQLDLMLASARLRDRAADHVL
+LSGPPGLGKTTLAMIVAAEMNAPLRLSSGPAIQHAGDLAAILSSLTEGEVLFLDEIHRMS
+RPAEEMLYMAMEDFRVDIVVGKGAGATSIPLELPPFTLVGATTRAGLLPGPLRDRFGFTG
+HLDFYTEVELERVLRRSALLLDMRLATEGYRQIARRSRGTPRIANRLLRRVRDWALVKGL
+AEVGAHDAAAALDMYEVDGRGLDRLDRSVLTALCTTFGGGPVGLSTLATAVGEEAETVET
+VAEPFLIREGMVARTPRGRVALPGAWEHLGLAAPEATPGP
+>1_952
+MSAESSPLSAAAVDPEERRLEAALRPKHLDEFVGQMRVREQLDLMLASARLRDRAADHVL
+LSGPPGLGKTTLAMIVAAEMNAPLRLSSGPAIQHAGDLAAILSSLTEGEVLFLDEIHRMS
+RPAEEMLYMAMEDFRVDIVVGKGAGATSIPLELPPFTLVGATTRAGLLPGPLRDRFGFTG
+HLDFYTEVELERVLRRSALLLDMRLATEGYRQIARRSRGTPRIANRLLRRVRDWALVKGL
+AEVGAHDAAAALDMYEVDGRGLDRLDRSVLTALCTTFGGGPVGLSTLATAVGEEAETVET
+VAEPFLIREGMVARTPRGRVALPGAWEHLGLAAPEATPGP
+>2_1585
+MSAEPSPLSGLAADPEERRLEAALRPKHLDEFVGQRRVREQLDLMLASARLRDRAADHVL
+LSGPPGLGKTTLAMIVAAEMNAPLRLSSGPAIQHAGDLAAILSSLTEGEVLFLDEIHRMS
+RPAEEMLYMAMEDFRVDIVVGKGAGATSIPLELPPFTLVGATTRAGLLPGPLRDRFGFTG
+HLDFYAEAELERVLRRSALLLDVRLASDGYRQIATRSRGTPRIANRLLRRVRDWALVKGV
+EQVEADHAAAALDMYDVDARGLDRLDRSVLTALCTTFGGGPVGLTTLATAVGEEAETVET
+VAEPFLIREGMVARTPRGRIALPGAWDHLGLASPEAGSGA
+>3_1480
+MSERPVTAFEADAEERRLEAALRPKHLDEFVGQARVREQLDLMLASARLRDRAADHVLLS
+GPPGLGKTTLAMIVAQEMNAPLRLSSGPAIQNAGDLAAILSSLTEGEVLFLDEIHRMSRP
+AEEMLYMAMEDFRVDIVVGKGAGATSIPLELPPFTLVGATTRAGLLPGPLRDRFGFTGHL
+EFYAIEELERVLRRSSALLDMRVETDGYRQIASRSRGTPRIANRLLRRVRDWALVKGLDT
+VDAEAASAALTMYEVDARGLDRLDRSVLTALCTTFGGGPVGLTTLATAVGEEAETVETVA
+EPFLIREGMMARTPRGRVALPGAWDHLGMTPPEAPLG
+>4_1181
+MSAESSPLSAAAVDPEERRLEAALRPKHLDEFVGQMRVREQLDLMLASARLRDRAADHVL
+LSGPPGLGKTTLAMIVAAEMNAPLRLSSGPAIQHAGDLAAILSSLTEGEVLFLDEIHRMS
+RPAEEMLYMAMEDFRVDIVVGKGAGATSIPLELPPFTLVGATTRAGLLPGPLRDRFGFTG
+HLDFYTEVELERVLRRSALLLDMRLATEGYRQIARRSRGTPRIANRLLRRVRDWALVKGL
+AEVGAHDAAAALDMYEVDGRGLDRLDRSVLTALCTTFGGGPVGLSTLATAVGEEAETVET
+VAEPFLIREGMVARTPRGRVALPGAWEHLGLAAPEATPGP
+>4_1823
+MSILRVHDGLFGLTFQQALDKASPGATIALTPGTYAEFESIPVGNLRIIGAGSRPEDVIL
+VTQLDVHGQISVENLTLQAPHFHNAVRLHGPTASAVFLYTAIQPEPTGQFPAVYSEGGAV
+TVRRSTLDQGPGGCALYVEGQGTATFEDSTTGTVNAVASTVTTVDSTHGAFHLSAASKVH
+ARGTLCLAPAEGMRGLVLTAFSVLKAERLTTDITYLELSLEDSALDVAEVSTSSDVDVHV
+MTSGGSHVQIPPDTVRVTDIDRQKAEQEVAERRQREEAAARRRAEEAAAEAAATGEAARQ
+AAAEAQAEARRQEEAKPRAVMWTAAQGADFTTVQDQLRPGDTLVLEEGDFHLPDPAIMLN
+CHIRGTGRADRIRLHGAVGIPNGATVRLENMLLVTPSTGNAVNVHAGGNATLTGVLVDPT
+KAEVFSPLCSSGGRLTLNEVRVVSEPTSYLADVLGTQGGVIVAEDSTFGIVRLESSARAT
+LTDCTANQLYVLGSGEALSLGTLRIPPTTPHLRALAVEEGGRGTIADLCVEEPCEVFVAG
+SLQIAHVSSAPHALHLITTDTALHSIPEDAIATAEEPSQTATADATLVEHPGENSTGDRE
+PSAGRGHDGADLADTNCDPMAQLSALTGLADVKNQVQTFIAEVRFAEARRQRGFAVRRQT
+LHSQFLGNPGTGKTTVARLLGRALHQAGVLSSDVFVEVTREDLVSEHIGGTGPKTRRILE
+SALGGILFIDEAYTLAEGGPQDFGREAIATLLAFMENHRDEFMVILAGYPEQMHAFFKAN
+PGLRSRVPLRFDFEDYSTAELVQMGLAALADDGFTVDPDAYRRTVAEAHRSSGDRSNGRW
+VRNLNDRLVRHMAHRVMAESGAAEDMVGVEDERLTQVDPADLHALLGRSTEDDTGVDHLL
+VELDEMVGLETVKAWVRGLVAQAEADERLRDAGVDLPRPTYHMVFAGSPGTGKTTVARLV
+GKLFHRLGILSTPQVVEASRERMVGRYIGHTEERTGLLLDEARGGVLFVDEAYQLDMPDS
+SNDFGKVAVETLITRLEDDRHSFIAIFAGYTDRMAQFLSLNPGLASRVPHNIEFPDYSPD
+DIAEIVVRTLRRTWSFDETVLRSAVAQGYAALPPESRANARQARNYADAISQAHKTWITE
+SSTDGDDIRHIRDATIIGVLAAEPTGQDQ

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000128.fa

@@ -0,0 +1,144 @@
+>0_1388
+MSLSSAAPTPPSVPLDPAGAPHRPQLPGSERTPPARTLVELFDATAREHPDATALDDGVE
+PLTYAELRERVDETARHLWAAGVRAGDRVGVRIASGTAALYVSILGVLAAGAAYVPVDAD
+DPEERARLVFGEAKVAGVLTDERVYAPHPEHTADPAAEARAPGLEDDAWIIFTSGSTGTP
+KGVAVSHRSAAAFVDAEARIFLADDPLAPGDRVLAGLSVAFDASCEEMWLAWRHGACLVP
+APRSLVRSGMDLGPWLAERRITAVSTVPTLAAMWPTEAMDNVRLLIFGGEACPPELAARL
+AEDGREVWNTYGPTEATVVACAAPLTGLGPVRIGLPLDGWDLAVVDPQTTLPVAEGETGE
+LIIGGVGLARYLDPAKDAEKYAPMPSLGWERAYRSGDLVVFEPEGLLFVGRADDQVKLGG
+RRIELGEVDAALQALPGVHGGAAAVQTTPAGHQILVGYLVPADPEAELDLHMAREHLAAE
+LPAALVPRLAVVDSLPTKTSGKVDRHALPWPLPGAEVDEDAPPPDEDTADGWVLRQWADV
+LGAPPKDADTDFFEAGGGSLAAAQLVARLRLRHPAVTVQDVYRNPTAGALVAAVVGDDGP
+RGIEVHDRHVDRTRHRTQWVQTLVGLPVFVLPALRLGVWTGLALNLLTLSGLAPGLPTVP
+WWVLIVAGLLVVTVPGRMLLTAATARLLLRGVSPGSYPRGGRVHLRLWLAQQISDLVDPY
+SLAGATWVPAYARLLGNRIGKDVDMHTVPPVTGMLTVEEGAAIEPEVDLSGYWVDGDVVR
+LGEVRIGADAVVGARSTLLPGAQVGAGAHVEAGSTVAGRVRGGQRHAGSPAVKVGKVKSR
+GPAEAPRETPGWRLMATVLSTLISLLPLVSAAAAAAVAAWSLTWWPPAPEAGPLAAVGTT
+AARLLAASPLVAGVWFLTQMLLVLVTVRLLALGITEGHHPVRSRVGWQVWATERVLDAAR
+DQLFPIYASRFTPTWLRLLGAEVGRGVEASTVVLLPCMTRVGDGAFLADDTMVSSYSLDG
+GWMHVAPAKVGKRSFVGNSGMVPGGRTLRRDSLVAVLSTTPAKTKAGTSWMGSPPVRLRR
+NEVTADAALTYDPPARLKAARTAWELLRAIPVWLHVALSLAVGATLAALIAVGTWALAFV
+LGGVVLLAAGAVAASLTVLAKRVFVGRIRAGEHPLWSSFIWRNEVADTFTEFLAAPWFSR
+AAAGTPALVWFLRAMGARIGHGAWVESYWLPEADLVELGDGATVNRGCVVQTHLFHDRVM
+SLDAVVLEDGATLGPHSVVLPAARLGRGTTVGAGSLVMRGEELPAGTWWLGNPVSPWRRP
+DGDPAAAATPSREEA
+>1_1129
+MSLSSAAPTPPSVPLDPAGAPHRPQLPGSERTPPARTLVELFDATAREHPDATALDDGVE
+PLTYAELRERVDETARHLWAAGVRAGDRVGVRIASGTAALYVSILGVLAAGAAYVPVDAD
+DPEERARLVFGEAKVAGVLTDERVYAPHPEHTADPAAEARAPGLEDDAWIIFTSGSTGTP
+KGVAVSHRSAAAFVDAEARIFLADDPLAPGDRVLAGLSVAFDASCEEMWLAWRHGACLVP
+APRSLVRSGMDLGPWLAERRITAVSTVPTLAAMWPTEAMDNVRLLIFGGEACPPELAARL
+AEDGREVWNTYGPTEATVVACAAPLTGLGPVRIGLPLDGWDLAVVDPQTTLPVAEGETGE
+LIIGGVGLARYLDPAKDAEKYAPMPSLGWERAYRSGDLVVFEPEGLLFVGRADDQVKLGG
+RRIELGEVDAALQALPGVHGGAAAVQTTPAGHQILVGYLVPADPEAELDLHMAREHLAAE
+LPAALVPRLAVVDSLPTKTSGKVDRHALPWPLPGAEVDEDAPQPNEDTADGWVLRQWADV
+LGAPPKDADTDFFEAGGGSLAAAQLVARLRLRHPAVTVQDVYRNPTAGALVAAVVGDDGP
+RGIEVHDRHVDRTRHRTQWVQTLVGLPVFVLPALRLGVWTGLALNLLTLSGLAPGLPTVP
+WWVLIVAGLLVVTVPGRMLLTAATARLLLRGVSPGSYPRGGRVHLRLWLAQQISDLVDPY
+SLAGATWVPAYARLLGNRIGKDVDMHTVPPVTGMLTVEEGAAIEPEVDLSGYWVDGDVVR
+LGEVRIGADAVVGARSTLLPGAQVGAGAHVEAGSTVAGRVRGGQRHAGSPAVKVGKVKSR
+GPAEAPRETPGWRLMATVLSTLISLLPLVSAAAAAAVAAWSLTWWPPAPEAGPLAAVGTT
+AARLLAASPLVAGVWFLTQMLLVLVTVRLLALGITEGHHPVRSRVGWQVWATERVLDAAR
+DQLFPIYASRFTPTWLRLLGAEVGRGVEASTVVLLPCMTRVGDGAFLADDTMVSSYSLDG
+GWMHVAPAKVGKRSFVGNSGMVPGGRTLRRDSLVAVLSTTPAKTKAGTSWMGSPPVRLRR
+NEVTADAALTYDPPARLKAARTAWELLRAIPVWLHVALSLAVGATLAALIAVGTWALAFV
+LGGVVLLAAGAVAASLTVLAKRVFVGRIRAGEHPLWSSFIWRNEVADTFTEFLAAPWFSR
+AAAGTPALVWFLRAMGARIGHGAWVESYWLPEADLVELGDGATVNRGCVVQTHLFHDRVM
+SLDAVVLEDGATLGPHSVVLPAARLGRGTTVGAGSLVMRGEELPAGTWWLGNPVSPWRRP
+DGDPAAAATPSREEA
+>2_1432
+MSHPSVAPVPPPDPVDPADDAAAVHPPQLPGALRTPPARTLVELFDATAREHPDAPALDD
+GVEPLTYAELQARVDETARHLWAAGVRTGDRVGVRIASGTAALYVSILGVLAAGAAYVPV
+DADDPEERARLVFGEARVAGVLTDERVYAPAAVHAPRPDAEDRAPGLEDDAWIIFTSGST
+GTPKGVAVSHRSAAAFVDAEARIFLSEDPLAPGDRVLAGLSVAFDASCEEMWLAWRHGAC
+LVPAPRSLVRSGMDLGPWLAERRITAVSTVPTLAAMWPTEALDNVRLLIFGGEACPPELA
+ARLAEDGREVWNTYGPTEATVVACAAPLTGVGPVRIGLPLDGWDLAVVDPATGVPVAEGA
+TGELIIGGVGLARYLDPVKDAEKYAPMPTLGWERAYRSGDLVVFEPEGLLFVGRADDQVK
+LGGRRIELGEVDAALQALPGVHGGAAAVQTTPAGHQILVGYLVSADPEADLDLHLARERL
+AEELPAALVPRLALMDALPTKTSGKVDRHALPWPLPGAEPDDEAPQPDEASPHGWVLRQW
+ADVLGAPPSGPDADFFEAGGGSLAAAQLVARLRLRHPAVTVQDVYRSPTASALAAAVVGE
+DGGAGGIEVHDRHVASTRHRTQWAQTLVGLPVFVLPALRLGVWTGLALNLLALTGLAPGL
+PTVPWWVLAVAGLLVVTVPGRMLVTALAARLLLRGVEPGSHPRGGRVHLRLWLAQQITDV
+VDPYSLAGAMWVPAYARLLGNRIGADVDLHSVPPVTGLLTVGEGASIEPEVDLSGYWVDG
+DVVRIGEVRIGAGAVVGARSTLLPGARVGAGAHVEAGSTVAGRLRGGQRHAGSPAAKVGK
+VRADGPNVAPPRATGWRAVSTVLSTLVALLGLVAAGAAAAVGAWSLTWWPPADPTGPAAA
+VGVTALRLLAASPLIAAVWFGAQMLLVLGAVRLLSVGITEGHHPVRSRVGWQIWATERIL
+DAARDHLFPLYASRFTPVWLRLLGAEVGRGVEASTVVLLPGMTRVGDGAFLADDTMVSSY
+SLEGGWMHVAPAKVGKRAFVGNSGMVPAGRTLRRDSLVAVLSTTPAKTKAGTSWMGSPPV
+RLRRTEVAADASVTYAPTARLKAARTGWELLRAIPVWLHVALTIATGAALAALTAVGTWA
+LAAVLGGAVLLAAGAAAASLTVLAKKAFVGRVRPGEHPLWSSFIWRNEVADTFTEFLAAP
+WFARAAAGTPALVWFLRAMGARIGRGAWVESYWLPEADLVTLGDGATVNRGCVVQTHLFH
+DRVMSLDEVVLADGATLGPNSVVLPAARLGRGTTVGAGSLVMRGEELPAGTWWLGNPVSP
+WRRPDGVPDPSPAPSREAA
+>3_1340
+MTAPHPSTPRSAPHDAGTPHAPQLPGTDRTPPPRTLIDILDATAREHPEAPALDDSTAQL
+GYAELLDRVLESARFLQAHGIGAGDRVGVRIPSGTAALYVSILAVMAVGAAYVPVDADDP
+EERARLVFGEARVAGVLTGERALDDRAAAERAEAPEARAPRLEDDAWIIFTSGSTGTPKG
+VAVSHRSAAAFVDAEARIFLTADPLGPGDRVLAGLSVAFDASCEEMWLAWRHGACLVPAP
+RALVRSGMDLGPWLAERRITAVSTVPTLAAMWPTAALANVRLLIFGGEACPPDLAARLAV
+PGREVWNTYGPTEATVVACAAPLAGEGPVRIGLPLDGWDLAVVDPASGVPVAEGETGELI
+IGGVGLARYLDPAKDAEKYAPMETLGWDRAYRSGDLVLYDPAGLLFLGRADDQVKVGGRR
+IELGEVDAALQNLPGVQGGAAAVRTTPAGNQLLVGYLKPTGPLEGFDLDAAHARLAEELP
+AAIVPRLALVDSLPTKTSGKVDRNALPWPLPGTAATDDADTPDESTPDGWVLAQWAAVLG
+AAPADGSTDFFSAGGGSLAAAQLVARLRERHPGVTVQDVYRHPTADELVSAVLGEGAEGI
+EVHERNVDTTRRRTQWAQTLVGLPAFILPALRLGTWTGVAVNLLAATGLVPGLPTVPWWI
+LALVGLFVVTAPGRMLVAGLTARALLHGVGPGAHPRGGRVHLRLWLAQQVTDLVDPYSLA
+GAGWIPAYGRLLGNRIARDADLHALPPVTGLLTVGEGASIEPEVDLSGYWVDGDVLRVGT
+VEVGAGAVVGSRSTLLPGAKVGAGAHVEAGSTVAGRLRGHQRHGGSPAVKLGKVKRGSAP
+AETAPDAAGWRVLSTLSSTAVALLPLAAVAAAAAVGAWSLTWWPPAAADASPLQAVGTAA
+ARLLAASPLIAAVWFGVQMLLVLVAVRVLAIGITPGHHPVRSRVGWQIWATERLLDAARD
+QLFPIYASRFTPTWLRWLGARVGKDVEASTVVLLPTMTQVGDGAFLADDTMVSSYTLEDG
+WMHVAPAKVGKRSFVGNSGMVPGGRTLRRDSLVAVLSTTPAKTKAGTSWMGSPPVRLRRT
+EVEADASLTYAPPARLKAARTGWELLRAIPVWLHVALTIAVGAALAALAAVGTWWLAALL
+GGAVLLAAGAVAAVVTVLAKRAFVGRVRAGEHPLWSSFIWRNEVADTFTEFLAAPWFSRA
+AAGTPAMVWFLRGMGARIGRGAWVESYWLPEADLVTLGDGATVNRGCVVQTHLFHDRVMA
+LDEVVLADGATLGPNSVVLPAARLGEGTTVGAGSLVMRGEELPGGTWWLGNPVAPWRRPG
+KTPTAHQRAAAATGALPVIPDPTSAGGIR
+>3_2386
+MTTQQFHPARAPAAATSAVESEDRALYPVEPPPAPRTLVDILKATAAAHPDAVALEGHGP
+GGSAALNYMQLLARAEQVAARLREAGIGPGDRVGLRVPSGTTDLYVALVAILLSGAAYVP
+VDWDDPASRAETVFGEAAVACVIGEGMAITPVDGVAPLRRTGAPGLEDDAWIIFTSGTTG
+LPKGVAITHRNAAALVDAEARMYLQDDPLGPGDRVMAGLAVSFDASCEEMWLAWRHGAAL
+IAAPREVVRSGPDLGAWIAQKRLTAISTVPTLAALWPDDSLVGIRLLIFGGEACPPELVA
+RLATQDRELWNTYGPTEATVIASGAILRPGQEVRIGLPVPGWKLAVVDPEGRPVRWGEAG
+ELVIGGVGLGRYLDPEKDAEKYAPLAALGWDRCYRTGDMVVAEPEGLVFAGRIDDQVKIS
+GKRIELGEVDAHLTAMPGVRAGAAAVQLTDSGTAVLVGYLMPEKGVELDLPRIRELMGER
+LPGGVVPTLAVVDELPMKSSGKVDRTALPWPLPFDAGEAPPLPEDLRWLAERWTAVLGPA
+PLTPESDFFALGGSSVAVAHLVTALREHHPQLEFPQVYANPTLAGMADLLAGMADSGPRV
+ERRQPAAMPRFTGPAQIAWVTALTGVAGLRYVAGATVAIWALGQFFGAGWVVTPPVLPTL
+IAWAVLFSVPGRLYGTALVVRVLNAGLRPGRYRRGGLTHLRVWAADRAIATARLEYLLGG
+PAASHVHRVFGTRVGSGAHLDHMPSATGLVRIGHGVSVGAEADLHGHWVEAGTFVLGEIV
+VGDHARIGARSIVLPGVRVGSWAEIQAGSRVASSVPAHEYWGGSPLRRLGEAGVTWPSED
+PRAARGVRAWPVALAAAGQMFTLAVLALLPMVALLPWVVLVLSPLRGATDFRDVLPVMAL
+WVPVVVVLAVPTWFLLVSAFVRLLAPLVKPGFYPVHSLQAWAAWSIQNVMRRTLIGTYPV
+YASSATPWLMRLMGARIGRNVEISTVEAIPHLTVVEDGAFLADHSMAAVPRVGRGWVHIG
+STVIGRGSFVGNSAIVGPDRDLPDDALVAVLGVSPHRPAPGTSWLGRSPTAIPRVKVAAD
+AAATFAPPRRLKAARWAVELCRFVPAFIVGWLDIAVVYFLATVYMGASGQGSDPLRGVVV
+ATVASLPAAVAAALIASAMPVLFKWALVGEFVPQDRPLFSSFVWRNELMDAFVEVLAVPS
+LIRIGLGSPVLTMWARWMGVEIGRNAWVESWWLPETDLVSIADNATVNRGTVLQTHLFHD
+RVMTMQPVRLDEGATLGPNSFMLPGSSLGPCATVRPGSLVLREDAVPGHSDWSGNPIRAV
+QDAPAAAATGDTATRARARADHLDADERPQTGPIPVVATSTPAREEPTS
+>4_1337
+MSLSSAAPTPPSVPLDPAGAPHRPQLPGSERTPPARTLVELFDATAREHPDATALDDGVE
+PLTYAELRERVDETARHLWAAGVRAGDRVGVRIASGTAALYVSILGVLAAGAAYVPVDAD
+DPEERARLVFGEAKVAGVLTDERVYAPHPEHTADPAAEARAPGLEDDAWIIFTSGSTGTP
+KGVAVSHRSAAAFVDAEARIFLADDPLAPGDRVLAGLSVAFDASCEEMWLAWRHGACLVP
+APRSLVRSGMDLGPWLAERRITAVSTVPTLAAMWPTEAMDNVRLLIFGGEACPPELAARL
+AEDGREVWNTYGPTEATVVACAAPLTGLGPVRIGLPLDGWDLAVVDPQTTLPVAEGETGE
+LIIGGVGLARYLDPAKDAEKYAPMPSLGWERAYRSGDLVVFEPEGLLFVGRADDQVKLGG
+RRIELGEVDAALQALPGVHGGAAAVQTTPAGHQILVGYLVPADPEAELDLHMAREHLAAE
+LPAALVPRLAVVDSLPTKTSGKVDRHALPWPLPGAEVDEDAPQPNEDTADGWVLRQWADV
+LGAPPKDADTDFFEAGGGSLAAAQLVARLRLRHPAVTVQDVYRNPTAGALVAAVVGDDGP
+RGIEVHDRHVDRTRHRTQWVQTLVGLPVFVLPALRLGVWTGLALNLLTLSGLAPGLPTVP
+WWVLIVAGLLVVTVPGRMLLTAATARLLLRGVSPGSYPRGGRVHLRLWLAQQISDLVDPY
+SLAGATWVPAYARLLGNRIGKDVDMHTVPPVTGMLTVEEGAAIEPEVDLSGYWVDGDVVR
+LGEVRIGADAVVGARSTLLPGAQVGAGAHVEAGSTVAGRVRGGQRHAGSPAVKVGKVKSR
+GPAEAPRETPGWRLMATVLSTLISLLPLVSAAAAAAVAAWSLTWWPPAPEAGPLAAVGTT
+AARLLAASPLVAGVWFLTQMLLVLVTVRLLALGITEGHHPVRSRVGWQVWATERVLDAAR
+DQLFPIYASRFTPTWLRLLGAEVGRGVEASTVVLLPCMTRVGDGAFLADDTMVSSYSLDG
+GWMHVAPAKVGKRSFVGNSGMVPGGRTLRRDSLVAVLSTTPAKTKAGTSWMGSPPVRLRR
+NEVTADAALTYDPPARLKAARTAWELLRAIPVWLHVALSLAVGATLAALIAVGTWALAFV
+LGGVVLLAAGAVAASLTVLAKRVFVGRIRAGEHPLWSSFIWRNEVADTFTEFLAAPWFSR
+AAAGTPALVWFLRAMGARIGHGAWVESYWLPEADLVELGDGATVNRGCVVQTHLFHDRVM
+SLDAVVLEDGATLGPHSVVLPAARLGRGTTVGAGSLVMRGEELPAGTWWLGNPVSPWRRP
+DGDPAAAATPSREEA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000142.fa

@@ -0,0 +1,42 @@
+>0_1627
+MRVLVTGGAGYLGSHTVLTLLEAGHDVLVLDSLVTATTTSLERVAELAETRLGGSRLRLH
+VADIRRPEDYRGALADFGPAALVHFAGLKSPTESMTRPAAYYDVNVGGTAAVAEAALAAG
+ARTVLFSSSATVYGDRAPVPVAEDAATDPVSPYGHSKLMAEQVLRDVCATVDGGGLAMLR
+YFNPVGAHPSGRLGEDPSGVPANLMPFVARVASGAYPELRVFGADFDTRDGSAVRDFIHV
+MDLAEAHVAGLEWLAARVAAGGGTTTRVWNIGRGEGVTVFEMVRAFEAVTGGRIPYRVVE
+RRPGDIAESCAAVDAIGAEVGWHARRDVTAMVRDLWAWQEANPAGFSPRTE
+>1_1341
+MRVLVTGGAGYLGSHTVLTLLEAGHDVLVLDSLVTATTTSLERVAELAGTRLGGSRLRLH
+VADIRRPEDYRGALADFGPAALVHFAGLKSPTESMTRPAAYYDVNVGGTAAVAEAALAAG
+VRTVLFSSSATVYGDRAPVPVAEDAATDPVSPYGHSKLMAEQVLRDVCATVDGGGLAMLR
+YFNPVGAHPSGRLGEDPSGVPANLMPFVARVASGAYPELRVFGADFDTRDGSAVRDFIHV
+MDLAEAHVAGLEWLAARVATGGGTTTRVWNIGRGEGVTVFEMVRAFEAVTGGRIPYRVVE
+RRPGDIAESCAAVDAIGAEVGWHARRDVTAMVRDLWAWQEANPAGFSSRAE
+>2_1172
+MPMRVLVTGGAGYLGSHTVVVLLEAGHDVLVLDSLVAGSTAPLERAAELAGVALGGRRLD
+LVVADIRCPADYRAALEAFAPEAMVHFAGLKSPAESLSRPADYYDVNVGGTAAVAAAALA
+AGARTVLFSSSATVYGDRAPVPVDETAPTDPVSPYGRSKLMAEQVLRDVCATTDGVGLAM
+LRYFNPVGAHPSGRLGEDPRGVPANLMPFVARVATGAYPELQVFGADFPTRDGSAVRDFI
+HVMDLAEAHLAALAWLAARRGDGAEPTTRVWNIGRGEGVTVFEMVRAFEEVTGARIPCRV
+TARRAGDIAESCAAVDAVGAEVGWRARRDVTAMVRDLWAWQRAHPHGFGTGAA
+>2_1184
+MRVLVTGGAGFLGSHTVSVLLDAGHDVLVLDSLVSSTTVPLERIADLAGVTFGGSRLRFH
+RADVREPTSYREAVVAFGPDAVVHFAGLKSPTESLADPASYYTVNVAGTAAVAEVAGGAG
+VRAFLFSSSATVYGDEAPVPVGEDAAVAPVTPYGHSKLMAEQVLRHMHEAGRHMGVAVLR
+YFNPVGAHPSGRLGEDPQGVPANLMPFVARVAGGRYEQLNVFGADFATRDGSAVRDFIHV
+MDLAEAHVATLEWMVAQPGDEVGVRVWNIGRGEGVTVFEMIQAFERVTGRPVPFQVVGRR
+PGDIAASCASVDAIAATVGWRASRDTDAMVRDLWAWQQANPSGYAGDAP
+>3_1102
+MRALVTGGAGYLGSHTVTTLLDAGHDVLVLDSLAGAGRAGLERAAEVCGVGLGGARLRLV
+VADIRRPEDWADEVVAWAPDTVVHFAGLKSPTESMASPAEYYSVNVGGTAHVAEAAVRAG
+ARTLLFSSSATVYGDRAPVPVAESAPIDPVSPYGRSKAMAEQVLTDVHAASPGLSVASLR
+YFNPVGAHPSGRMGEDPQGTPANLMPFVSRVASGAYPELTVFGADFATRDGSAVRDFIHV
+MDLAEAHVAALEWMAARPSEEAGVRVWNIGRGEGVTVFEMVRAFEEVTGRPVPFTVGGRR
+AGDIAESCADVGAVARDVGWRARRDVREMVRDLWAWQQAEQEGDGGP
+>4_1556
+MRVLVTGGAGYLGSHTVLTLLEAGHDVLVLDSLVTATTTSLERVAELAGTRLGGSRLRLH
+VADIRRPEDYRGALADFGPAALVHFAGLKSPTESMTRPAAYYDVNVGGTAAVAEAALAAG
+ARTVLFSSSATVYGDRAPVPVAEDAATDPVSPYGHSKLMAEQVLRDVCATVDGGGLAMLR
+YFNPVGAHPSGRLGEDPSGVPANLMPFVARVASGVYPELRVFGADFDTRDGSAVRDFIHV
+MDLAEAHVAGLEWLAARVATGGGTTTRVWNIGRGEGVTVFEMVRAFEAVTGGRIPYRVVE
+RRPGDIAESCAAVDAIGAEVGWHARRDVTAMVRDLWAWQEANPAGFSSRTE

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000150.fa

@@ -0,0 +1,35 @@
+>0_1793
+MTTLTAPQADLDALRTPAAAAAHRVAGERPAAAADATPALSVRDLVLEYPDGERGVLRAL
+DEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGSVSVAGREMAGLSRKERTALR
+GQEIGVIFQQPNLIPSLTAAEQLELTVHLDRDATRADRRAAKARAMELLERVDLADQAGK
+RPHQLSGGQRQRVNIVRALMASPTLLLVDEPTSALDRERSAAVVDLLGTLTREEQVATLM
+VTHDHEFLSVTDRTLTMVDGRLSAE
+>1_1500
+MTALTAPQADLDALRTPAAAAAHRVAAERPATAADATPALSVRDLVLEYPDGERGVLRAL
+DEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGSVSVAGREMAGLSRKERTALR
+GQEIGMIFQQPNLIPSLTAAEQLELTVHLDRDATRADRKAARARALELLERVDLADQARK
+RPHQLSGGQRQRVNIVRALMASPTLLLVDEPTSALDRERSAAVVDLLGTLTREEQVATLM
+VTHDHEFLSATDRTLTMVDGRLHAE
+>2_995
+MTTTLASQTDLDPMRTPAAAAAHRIAPGTAAPDGSGGTPALSVRDLVLEYPDGERGVLRA
+LDEVSLDLHAGTFTALVGPSGSGKSSLLAVAAGLVPPTSGTVTVAGRELTGLSRTERTGL
+RGREIGVIFQQPNLIPSLTAAEQLELSVHLDRDATRTDRKAARDRAMALLERVDLADQAG
+KRPHQLSGGQRQRVNIVRALMASPALLLVDEPTSALDRERSAAVVDLLGALTRDEGTATL
+MVTHDHEFLAATDRTLTMVDGRLTD
+>2_1037
+MSTTTPVIQLSSVTKTYQRRDLYTDASVTVIPGRAHAIVGPNGSGKSVMMRLMCGFLLPS
+SGSVTIDPRYLDGRRTFPDKFGVVIDKPGMLPHLTGLENLRRLAEIQKKIGDERIREVMQ
+SFGLDPDARQRVHQYSLGMKQKLNLCQAVMEDPEVLVLDEPFNALDADSADALRGRLASF
+VADGGTLVFTSHDSRDVEQLADSVIRLENGRVTQEDASPRT
+>3_938
+MTISTHTPDLSAYRSPAAARVTAHDAAPAAPDAAPVLSVRDLVLEYPDGEGRTLRALDGV
+SLDLTPGTFTAMIGPSGSGKSSLLAVAAGLIAPTSGSVTVAGTELTGLSRAARTRLRGDR
+IGVVFQQPNLLPSLTAREQLELVVRLDPKSTRADRTAAAARAQELLERVDLGRRADQRPH
+QLSGGQRQRVNIVRALMGTGSGAPALLLVDEPTSALDRERSAAVVELLGELTRQEGVATL
+MVTHDHEFLGATDRVLTMVDGRLAA
+>4_1714
+MTTLTAPQADLDALRTPAAAAAHRVAGERPAAAADATPALSVRDLVLEYPDGERGVLRAL
+DEVSLDLLPGTFTAMVGPSGSGKSSLLAVAAGLVTPTSGCVSVAGREMAGLSRKERTALR
+GQEIGMIFQQPNLIPSLTAAEQLELTVHLDRDATRADRRAAKARALELLERVDLADQAGK
+RPHQLSGGQRQRVNIVRALMASPTLLLVDEPTSALDRERSAAVVDLLGTLTREEQVATLM
+VTHDHEFLSATDRTLTMVDGRLSAE

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000153.fa

@@ -0,0 +1,49 @@
+>0_1914
+MPPSQDAASLTQLGVIGVILLVVLFYGGTMIMSVAISKKKENADAYMTAGNQIGFGVSAA
+SMTATWIWAASMYASVTAGYTYGVSGPLHYGL
+>0_1915
+MILFIYPFGRRIRAVAPRAHTLAEVMYARHGRSSQLMLAGSNVLGSVISLTSNFIAGGAL
+ISLLSPLSFGAGILIVAAGVLLYTLWSGFRASVLTDFAQVMAMLGATVIIIPAVFFAAGG
+PDMFQAGVEAGHVTAQQQSFFSSDAFMNQGAPYIAAVLAYAIGNQTIAQRLFAVREDLIK
+PTFITATLGYGGTVIGVGMLGVMALYLGVEPLDGDVNNLLPQMVADHLPLALVALAFLMI
+IGSLSSTADSDLSALSSIVMTDVYGQSVGRKNADPKTMLLIGRITMIVATAAALYFATAK
+FDILDLLVFVGALWGCLVFPVIASFYWGRITNVAFTVSVLAALTVFLPVRFEWIPIEGAW
+AFVVETLAILGVGVVLCIMCFGFFGLRPAVVVGAIASVVMLFLGYGFLRDYATLTGSLVA
+YAVSFLVCWGLSVRSGQDFDFDRIARVTGDFDPATEDLPQVERASAPVS
+>1_1619
+MPPSQDAASLTQLGVIGVILLVALFYGGTMIMSVAISKKKENADAYMTAGNQIGFGVSAA
+SMTATWIWAASMYASVTAGYTYGVSGPLHYGLWGALMILFIYPFGRRIRAVAPRAHTLAE
+VMYARHGRSSQLMLAGSNVLGSVISLTSNFIAGGALISLLSPLSFGAGILIVAAGVLLYT
+LWSGFRASVLTDFAQVMAMLGATVIIIPAVFFAAGGPGMFQAGVEAGHVTAQQQSFFSSE
+AFMNQGAPYIAAVLAYAIGNQTIAQRLFAVREDLIKPTFITATLGYGGTVIGVGMLGVMA
+LYLGVEPLDGDVNNLLPQMVADHLPLALVALAFLMIIGSLSSTADSDLSALSSIVMTDVY
+GQSVGRQNADPKTMLLIGRITMIVATAAALYFATAKFDILDLLVFVGALWGCLVFPVIAS
+FYWGRITNVAFTASVLAALAVFLPVRFEWIPLEGAWAFVVETLAILGVGVVLGIMCFGFF
+GLRPAVVVGAIASVVMLFLGYGFLRDYATLTGSLVAYAVSFLVCWGLSVRSGQDFDFDRI
+ARVTGDFDPATEDLPQVERASASVS
+>2_863
+MPPSQDGAELVQLGVIGVIVLVVFFYGGTMLMSLAISRRKENADAYMTAGNKIGFGVSAA
+SMTATWIWASSMYASVTAGYTYGVSGPIHYGLWGALMILFIYPFGRRIRKVAPRAHTLAE
+VMYARHGRSSQLMLAGSNVLGSVISLTSNFIAGGALIAILSPLSFGAGILIVAAGVLLYT
+LWSGFRASVLTDFAQVMAMLGATVVIIPAVFFAAGGPGMFEAGVQAGNVTAQQQDFFSSE
+AFMNQGAPYIAAVLAYAIGNQTIAQRLFAVREDLIKPTFITATVGYGGTVIGVGMIGVMA
+LYLGVQPLDGDVNNLLPQMVSSYLPLLVVALAFLMIIGSLSSTADSDLSALSSIVMTDVY
+GQSVGRENANPKTMLLIGRVTMIVATAAALYFATARFNILDLLVFVGALWGCLVFPVIAS
+FYWRKVTNAAFTVGVLAALAVFLPVRFEWIPLTGAWALVVEALAILGVGVVLGIMAFGFF
+GLRAAVVVGALATAATAFVGFGFLRDYATLSGSLVAYAVSFLVCWGMSVRSGQDFDFDRI
+ARVTGDFDPATDDAADRPVAQPAGARAS
+>3_799
+MSVLAALAVFLPVRFEWFPLEGAWAFVVETLAILGVGVALGIMCFGFFGLRPAVVVGAIA
+SVVMLFLGYGFLRDYATLTGSLVDYAVSFLVCWGLPVRSGQDFDFDQIARVTGDFDPATE
+DLPQVERVAASVS
+>4_1841
+MPPSQDAASLTQLGVIGVILLVALFYGGTMIMSVAISKKKENADAYMTAGNRIGFGVSAA
+SMTATWIWAASMYASVTAGYTYGVSGPLHYGLWGALMILFIYPFGRRIRAVAPRAHTLAE
+VMYARHGRSSQLMLAGSNVLGSVISLTSNFIAGGALISLLSPLSFGAGILIVAAGVLLYT
+LWSGFRASVLTDFAQVMAMLGATVIIIPAVFFAAGGPDMFQTGVEAGHVTAQQQSFFSSD
+AFMNQGAPYIAAVLAYAIGNQTIAQRLFAVREDLIKPTFITATLGYGGTVIGVGMLGVMA
+LYLGVEPLDGDVNNLLPQMVADHLPLALVALAFLMIIGSLSSTADSDLSALSSIVMTDVY
+GQSVGRQNADPKTMLLIGRITMIVATAAALYFATAKFDILDLLVFVGALWGCLVFPVIAS
+FYWGRITNVAFTASVLAALAVFLPVRFEWIPIEGAWAFVVETLAILGVGVVLGIMCFGFF
+GLRPAVVVGAIASVVMLFLGYGFLRDYATLTGSLVAYAVSFLVCWGLSVRSGQDFDFDRI
+ARVTGDFDPATEDLPQVERASAPAS

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000166.fa

@@ -0,0 +1,25 @@
+>0_2107
+MSPSPSDSARTPTVTAGEVIRVSAVVLARPDRRVLTVRKAGTAMFMFPGGKHLPGEAPVD
+TAVREVAEETGLRLRPDELTRLGAWDTAAANEPGAALHSEVFALWRPVARHEVPEPTDEI
+VALHWMDPAAPAAPGGHGVAPLLHPVLAAVAATPPF
+>1_1832
+MSPSPSDSSRTPTVAAGEVIRVSAVVLARPDRRVLTVRKAGTAMFMFPGGKHVPGEAPVD
+TAVREVAEETGLRLRPDELTRLGAWDTAAANEPGAALHSEVFALWRPVARHEVPEPTDEI
+VELHWMDPAAPAAPGGHGVAPLLHPVLAAVAAAPPF
+>2_566
+MSPSPSGSVPSSSSVSAESRGMGAAAPGQAAVPGETGAAAAVETIRVSAVVLARPDRRVL
+TVRKAGTTMFMFPGGKHLPGEDPLDTAVREVAEETGLRLRPDELTRLGAWDTDAANEPGA
+ALHSEVFALWRPVARHETPAPTDEIVELHWMDPAAPAAPAGHQVAPLLVAVLAAVAKNPP
+F
+>3_493
+MTAPAARSDEPAEIRVSAVVIARPDRRVLTVRKAGTAVFMFPGGKHEPGETPLETAVRET
+REETGLRIRPDELVHLGAWDTPAANEPGMALHSEVFALWRPMARHEVPAADDEIAELHWM
+DPAAPAAPAGAGVAPLLLPVLARVAAQPLF
+>3_1863
+MAAPDFVLSLREHVGHAPLWLSGVKAVALRAGDREVLLVRRADDGRWTLPAGILEPGEEP
+ADAAVREVAEETGVRCAPRRLAGVGTTAGAVYPNGDRARYLDVVLVLDETGGHAHVADDE
+NLEVGWFSVDGLSDLPPLHARALSWALEDGPARFVAGGDVLP
+>4_2053
+MSPSPSDSARTPTVAGGEVIRVSAVVLARPDRRVLTVRKAGTAMFMFPGGKHLPGEAAVD
+TAVREVAEETGLRLRPDELTRLGAWDTAAANEPGAALHSEVFALWRPVARHEVPEPTDEI
+VELHWMDPAAPAAPGGHGVAPLLHPVLAAVAAAPPF

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000167.fa

@@ -0,0 +1,66 @@
+>0_2123
+MDFSAPLDPTPAAPPAADAPPADVVARLQAELPGRVDVSAAALEAARADRSGHRSPAAPL
+AVVRARTVEDVQAACRIAHGTRTPLVTRGAGTGLAGGAVAGAGEIVLDMTAMDRILEVSP
+ADRVAVVEPGILNGALNAALAEHGLWWAPDPASKDISTVGGNIAMNAGGLLCAKYGVTRE
+AVLGLDVVLADGTLLRLGHRTVKGVTGYDLVALMIGSEGTLGVIVGATLALRPAVRGVPV
+TLGGFFPDVVAGAAAAEAITGAGHVPALMELMDEATLAAVRAHAGPERGAALPESGAFLL
+VQADGAGAEADGEAMAALMRTHGGDVTVTVDPAEGEALMALRRTAFPALERLGTPLVEDV
+AVPRSRMAEMFARIREIEARTGVAIPTTAHAGDGNLHPILLFGAAAQVGGAAEDAASIPA
+DVWEAAGELFRAGLELGGTLTGEHGVGLLKRAFLRDELGDAQHDLQQRIKAVFDPHGILN
+PGKVFTP
+>1_1848
+MDFSAPLAPAAPLAPAPAADAPPADVVARLQAELPGRVDVSAAALQAARADRSGHRSPAA
+PRAVVRARTVEDVQAACRIAHGTRTPLVTRGAGTGLAGGAVAGAGEIVLDMTAMDRILEV
+SPADRVAVVEPGILNGALNAALAEHGLWWAPDPASKDISTVGGNIAMNAGGLLCAKYGVT
+REAVLGLDVVLADGTLLRLGHRTVKGVTGYDLVALMIGSEGTLGVIVGATLALRPAVRGV
+PVTLGGFFPDVVAGAAAAEAITGAGHVPALMELMDEATLAAVRAHAGPERGAALPESGAF
+LLVQADGAGAEADGEAMAALMRAHGGDVTVTVDPAEGEALMALRRTAFPALERLGTPLVE
+DVAVPRSRMAEMFARIREIEARTGVAIPTTAHAGDGNLHPILLFGAAAQVGGAAEDAASI
+PADVWEAAGELFRAGLELGGTLTGEHGVGLLKRAFLRDELGDAQHDLQQRIKAVFDPHGI
+LNPGKVFTP
+>2_548
+MDSPASPGAPHPETTRPADVVARLQAALPGRVDVSPPPSRPPARDRSGHRSPAVPLAVVH
+AASVADVQAVCRLAHETRTPLVTRGAGTGLAGGAVAGAGEVVLDVMGMDRILEVSPADRV
+AVVEPGILNGALNAALAEHGLWWAPDPASKDISTVGGNIAMNAGGLLCAKYGVTREAVLG
+LDVVLADGTLMRLGHRTVKGVTGYDLTALMIGSEGTLGVIVGATLSLRPAVRGTQVTLGG
+FFPDVVAGAAAAEAVTGAGHVPALMELMDEVTLAAVRADAGPERGAALPESGAFLLVQAD
+GAGAEEDGAAMADLMRAHGGDVTVTADHAEGEALMALRRTAFPALERLGTPLVEDVAVPR
+SRMAEMFARIRDIEARTGIPIPTTAHAGDGNLHPILLFGAAAQVGGAAEDATSIPADVWE
+AAGELFRAGLELGGTLTGEHGVGLLKRAFLRDELGDAQHALQAKIKAVFDPHGILNPGKV
+FTP
+>3_474
+MTCIISVSPDDVLHRLRAALGDAVVTDPAALEPLRADRSGHRSPGAPLAAVRARTVEDVQ
+AACRIAHATGTPLVTRGAGTGLAGGAVAGPGQVVLDLSGMDRILEVAPEDRVAVVEPGVL
+NGALNRALEPHGLWWAPDPASKEISTVGGNIAMNAGGLLCAKYGVTREAVLGLAVVLADG
+TLMRLGHRTVKGVTGYDLTALMIGSEGTLGVIVEATLALRPLPEGAVHTLGAFFPDVAVG
+ARAAAAITGAGHVPAIMELMDEATLAAVRAHVSADDAARLPETGAFLLVQADGPGADEQA
+AAMAELIRSAGGEVTVTADPAEADRLVSLRRTAFPALEALGTPLVEDVAVPRSRMPEMFA
+RIREIEAETGLRIPTSAHAGDGNLHPVVLFGEPSRVGGEDGAQEAIPAEVWAAAGMLFRA
+GLELGGTLTGEHGVGLLKRAFLKEELGEAQHGLQERIKAVFDPRGILNPGIVFTP
+>4_158
+MLRSLEDVLTKPGQVSGRALDRHAAAADASHFLLVPEAVVTPTDAAEVGALMRASAAQGV
+SLTFRSGGTSLSGQAVTDSVLVDVRKNFRDIEVLDEGARVRVRPGATVRQVNARLARHGR
+RLGPDPASEAACTIGGVVANNSSGMNCGITENTYQTLESMTLVLPSGTVIDTAAPDADGI
+LRHHEPHLYRGLAQLADRVRSDSASVATVRRQFSMKNTMGYGLNALLDFDTPAQILAHLA
+IGSEGTLGFVAEAVFRTVVRPTHSATALLVFEELQAANEALPALVDSRAATVELLDATSL
+RVGQRLTGTPPIVRDLRVQDHAALLVEYSATTAEQLEELRQHGEALTGRIGLSQPAGFTT
+DADARAALWHLRKGLYASVAGARPQGTTALLEDIVVPVLALGRTCTALTQLFDRYDYRDS
+VIFGHAKDGNVHFMLTDDFADPARLQRYSDFTEDMVDLVLGEGGSLKAEHGTGRVMAPYV
+RRQYGDELYGVMREIKQLCDPGGVLNPGVLLNDDPQAHLRHIKAEPSVAEEVDRCVSCGY
+CEPVCPSRDLTLTPRQRIVTLRAIRSARLAGDEALAQSLEEDYDYAAVQTCAVDGMCQTA
+CPVEINTGDLVKRLRRQETGAVAQAGWNLAAQHWGTASIVAGRALDLAAKLPAAATITAN
+QLVRRIAGADSVPLYSPELPRGGGRRRRPAPVGEPVAVYFPACVSAMFGPAQPGTGAPGA
+AGVQDSVLALAQRAGVELLVPSDIDALCCGTPWSSKGKHTGQETITGRTIAALRRDSDHG
+RLPIVCDASSCTEGLRHALEVEVPPAGQQPLRILDAVEFTAEHLLPRLPEPRRIPSLTLH
+PTCSSTRMGLNPALARVAEAIAEDVQIPDDWGCCAFAGDRGLLHPELTASATARQAEQVQ
+AIDASAHASCNRTCELGMSRATGYPYSHVLELLNQSTIAGG
+>4_2069
+MDSSAPLDPTRAAPPAADAPPADVVARLQAELPGRVDVSAAALEAARADRSGHRSPAAPL
+AVVRARTVEDVQAACRIAHGTRTPLVTRGAGTGLAGGAVAGAGEIVLDMTAMDRILEVSP
+ADRVAVVEPGILNGALNAALAEHGLWWAPDPASKDISTVGGNIAMNAGGLLCAKYGVTRE
+AVLGLDVVLADGTLLRLGHRTVKGVTGYDLVALMIGSEGTLGVIVGATLALRPAVRGVPV
+TLGGFFPDVVAGAAAAEAITGAGHVPALMELMDEATLAAVRAHAGPERGAALPESGAFLL
+VQADGAGAEADGEAMAALMRTHGGDVTVTVDPAEGEALMALRRTAFPALERLGTPLVEDV
+AVPRSRMAEMFARIREIEARTGVAIPTTAHAGDGNLHPILLFGAAAQVGGAAEDAASIPA
+DVWEAAGELFRAGLELGGTLTGEHGVGLLKRAFLRDELGDAQHDLQQRIKAVFDPHGILN
+PGKVFTP

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000170.fa

@@ -0,0 +1,42 @@
+>0_2242
+MAPTAQDQSVHNVVIVGSGPAGYTAAIYTARAELSPVLVAGAVTAGGELMNTTEVENFPG
+FPEGVQGPELMANLEAQARRFNTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAVILTTG
+SAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFASKVTV
+LVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEASTLDVTG
+LFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAVTAAGS
+GCVAAQDVEHYLATVADVEEAAPAGPESDANPA
+>1_1946
+MAPTAQDPSVHNVVIVGSGPAGYTAAIYTARADLSPVLVAGAVTAGGELMNTTEVENFPG
+FPEGVQGPELMANLEAQARRFDTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAVILTTG
+SAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFASKVTV
+LVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEASTLDVTG
+LFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAVTAAGS
+GCVAAQDVEHYLATVADVEEAAPAGPESDANPA
+>2_416
+MAPTAQDQSVHNVVIVGSGPAGYTAAIYTARAHLQPVLVAGSVTAGGELMNTTEVENFPG
+FPEGIQGPELMANLEAQARRFDTEVLYEDVVKADLTASPKVLTLGDGTELRAHAVILTTG
+SAYRKLGVEGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFASKVTV
+LVRKDELRASKVMARRALENEKIEFRWNTEVAEVIGGEKVQTLRLRDTQTGEESTLDVTG
+LFVAIGQDPRTDLVQGQLELTEHGTIRIEHPSSRTSLPGVFAAGDVTDHTYRQAITAAGS
+GCVAAQDVEHYLATVADVEEAAPAGPDSDANPA
+>2_721
+MSTTSTDTTSTEQATDQLIIIGSGPAGYTAAIYAARAGLAPRVIAGSVTHGGALMNTTEV
+ENFPGFPGGIQGPELMAGLAEQAARFGAVIEYDDADTVQLKQHLKEVTTLAGKTYRAPAV
+IVATGSAYRELGLPEEKKLSGHGVSWCATCDGFFFREQDIIVVGGGDSAMEEALFLTRFA
+KSVTVVVRRDALRASKIMAARAKDNEKIRFAYNSAVTAIHGTDKVTGVTLADTITGDTRE
+VAATGVFVAIGHLPRTELVAGQLDLDDEGYIVVDARTTHTNLSGVFACGDAVDHRYRQAI
+TAAGTGCAAALDAERYLAALHDAYSIATALVEEPTHG
+>3_369
+MTTAEQDQQVRNVAIIGSGPAGYTAAIYTARANLSPVLLAGSVTAGGELMNTTEVENFPG
+FPEGIQGPELMANLEAQARRFDTEVVYDDVVQADLTSDPKVLTLGDGSQIRAHAVIMTTG
+SAYRELGVEGEKRLSGHGVSWCATCDGFFFREQEIAVAGGGDSAMEEALFLTKFASKVHV
+LVRRGELRASKIMAQRALEEPKIEFHWNTEVAEVQGDDKLSTLTLRDTVTGEESSLEVTG
+LFVAIGHDPRTDLVKGQLELTEHGTIRIDHPSSRTSVPGVFAAGDVTDHTYRQAITAAGS
+GCVAAQDVEHYLATVADVAEAAPAAPDSDSVA
+>4_2184
+MAPTAQDQSVHNVVIVGSGPAGYTAAIYTARADLSPVLVAGAVTAGGELMNTTEVENFPG
+FPEGVQGPELMANLEAQARRFNTEVVYDDVVQADLTSNPKVLTLGDGTQLRTHAVILTTG
+SAYRKLGVPGEERLSGHGVSWCATCDGFFFREQEIAVVGGGDSAMEEALFLTKFASKVTV
+LVRKDELRASKVMAHRAMENEKIEFRWNTEVTEVTGDDKVNTLRLRDTRTGEASTLDVTG
+LFVAIGQDPRTDLVQGQVELTEHGTIRIDHPSSRTSQPGVFAAGDVTDHTYRQAITAAGS
+GCVAAQDVEHYLATVADVEEAAPAGPESDAVPA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000174.fa

@@ -0,0 +1,50 @@
+>0_0
+MVADQAVLSSWRSVVGSLEDDARVSARLMGFVYLAQPQGLIGNTLLLAVPNETTRETLQG
+TQVADALTDALTQEFREEILLAISIDANLQPPRTPSSEARRSSLAGGPSGAAAPDVELPP
+AATAATSRRAVAEELPGFRIEPPADVVPAANAAPNGNGKPTPAPPSTSAETSRLNDRYHF
+ETFVIGSSNRFAHAAANAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGLRV
+RYVNSEEFTNDFINSIRHDEGASFKQVYRNVDILLIDDIQFLADKEATVEEFFHTFNTLY
+NNNKQVVITSDLPPKQLSGFEDRLRSRFEWGLITDIQPPDLETRIAILRKKAEAEGLVAP
+PEALEYIASRISTNIRELEGALIRVTAFASLNRQTVDIELAEHVLKDLITDETAHEITPE
+LILHATGEYFNLTLEELTSKSRTRTLVTARQIAMYLLRELTEMSLPKIGQVLGGRDHTTV
+IHADRKIRELMAERRTIYNQVTELTNEIKRKQRGA
+>1_1956
+MVADQAVLSSWRSVVGSLEDDARVSARLMGFVYLAQPQGLIGNTLLLAVPNETTRETLQG
+TQVADALTDALTKEFREEILLAISIDANLQPPRTPSSEARRSSLAGGPSGAAAPDVELPP
+AATAATSRRAVAEELPGFRIEPPADVAPAATAAPNGNGNGKPTPAPPSTSAETSRLNDRY
+HFETFVIGSSNRFAHAAANAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGL
+RVRYVNSEEFTNDFINSIRHDEGASFKQVYRNVDILLIDDIQFLADKEATVEEFFHTFNT
+LYNNNKQVVITSDLPPKQLSGFEDRLRSRFEWGLITDIQPPDLETRIAILRKKAEAEGLV
+APPEALEYIASRISTNIRELEGALIRVTAFASLNRQTVDIELAEHVLKDLITDETAHEIT
+PELILHATGEYFNLTLEELTSKSRTRTLVTARQIAMYLLRELTEMSLPKIGQVLGGRDHT
+TVIHADRKIRELMAERRTIYNQVTELTNEIKRKQRGA
+>2_405
+MVADQAVLSSWRSVVGALEDDARVSARLMGFVYLAQPQGLIGNTLLLAVPNETTRETLQG
+AQVAEALTDALTAEFREEILLAISIDANLQPPRAPEPEARRSALAGEPVTPAAPAAPGPE
+QSAGTGEPSRRAVAEELPGFRTEPPADVVPPEAAGAQAGKPTPAPPSTSAETSRLNDRYH
+FETFVIGSSNRFAHAAANAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGLR
+VRYVNSEEFTNDFINSIRHDEGASFKQLYRNVDILLIDDIQFLADKEATVEEFFHTFNTL
+YNNNKQVVITSDLPPKQLSGFEDRLRSRFEWGLITDIQPPDLETRIAILRKKAEAEGLVA
+PPEALEYIASRISTNIRELEGALIRVTAFASLNRQSVDIELAEHVLKDLITDETAHEITP
+ELILHATGEYFNLTLEELTSKSRTRTLVTARQIAMYLLRELTEMSLPKIGQVLGGRDHTT
+VIHADRKIRELMAERRTIYNQVTELTNEIKRKQRGA
+>3_359
+MAADQELLDRWREVVTALDDDPRVSARLMGFVYLAQPQGLIGNTLLLAVPNETTRETLQG
+AQVADALTDALTAVFREEILLAISIDSSLQPPRTPSADDRRAEELPDLAAARAETSPAPA
+PAAGMHRGVAEELPGMPAPREEPAPSRAAAPAAGAPTPAPPSTSSETSRLNDRYHFDTFV
+IGSSNRFAHAAANAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGLRVRYVN
+SEEFTNDFINSIRHDEGASFKAVYRNVDILLIDDIQFLADKEATVEEFFHTFNTLYNNNK
+QVVITSDLPPKQLSGFEDRLRSRFEWGLITDIQPPDLETRIAILRKKAEAEGLVAPPEAL
+EYIASRISTNIRELEGALIRVTAFASLNRQPVDIELAEQVLKDLITDDATQEITPELIVH
+TTAEYFNLTIDELTSKSRTRTLVTARQIAMYLLRELTEMSLPKIGQELGGRDHTTVMHAD
+RKIRELMAERRTIFNQVTELTNEIKRKQRGA
+>4_0
+MVADQAVLSSWRSVVGSLEDDARVSARLMGFVYLAQPQGLIGNTLLLAVPNETTRETLQG
+TQVADALTDALTKEFREEILLAISIDANLQPPRTPSSEARRSSLAGGPAAAAVPDVELPP
+AATAATSRRAVAEELPGFRIEPPADVAPAATAAPSGNGKPTPAPPSTSAETSRLNDRYHF
+ETFVIGSSNRFAHAAANAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGLRV
+RYVNSEEFTNDFINSIRHDEGASFKQVYRNVDILLIDDIQFLADKEATVEEFFHTFNTLY
+NNNKQVVITSDLPPKQLSGFEDRLRSRFEWGLITDIQPPDLETRIAILRKKAEAEGLVAP
+PEALEYIASRISTNIRELEGALIRVTAFASLNRQTVDIELAEHVLKDLITDETAHEITPE
+LILHATGEYFNLTLEELTSKSRTRTLVTARQIAMYLLRELTEMSLPKIGQVLGGRDHTTV
+IHADRKIRELMAERRTIYNQVTELTNEIKRKQRGA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000191.fa

@@ -0,0 +1,46 @@
+>0_19
+MTEVISPARPRRNIELVLLLAALTIALGADLLGMIGTDAPLDSTAWVPLGIFGAATLVLH
+VVLRLRAPYADPFMLPITALLNGLGLAMIHRLSQDAAMANPTSQLVWSVLAVLVASALVF
+LVRDHRVLRRWPYLFLAASGVLLLLPLVPGLGLSMYGARIWIDVGFGTFQPGEIAKITLA
+IFFAGYLSANRDLILLAGRRVGPVTFPRARDLGPLLAGWLLALGVLVFQRDLGSALLFFG
+MFMAMLYIATSRASWILLGLGLIAFGAALAFLFMPHVTARFEIWLRAFDPEIYHRDFGGS
+YQVVQGLFAMASGGLMGTGLGAGNPTQVPLSFSDMILTAIGEELGFVGLAAVLVLYLLLV
+TRMMRAALGVRDAFGKVLASGLAFTMAWQVFVVMGGVTLVLPLTGLTTPFLAAGGSSLLA
+NWIIVGLVLRISNAARRPVVVDGMVNASGPGAGHLDPGTALPAAAVPPGGGEER
+>1_1988
+MTEVISPARPRRNIELVLLLAALAIALGADLLGMIGTDAPLDSTAWVPLGVFGAATLVLH
+VVLRLRAPYADPFMLPITALLNGLGLAMIHRLSQDAAMANPTSQLVWSVLAVLVASALVF
+LVRDHRVLRRWPYLFLAASGVLLLLPLVPGLGLSMYGARIWIDVGFGTFQPGEIAKITLA
+IFFAGYLSANRDLILLAGRRVGPVTFPRARDLGPLLAGWLLALGVLVFQRDLGSALLFFG
+MFMAMLYIATSRASWILLGLGLIAFGAALAFLFMPHVTARFEIWLRAFDPEIYHRDFGGS
+YQVVQGLFAMASGGLMGTGLGAGNPTQVPLSFSDMILTAIGEELGFVGLAAVLVLYLLLV
+TRMMRAALGVRDAFGKVLASGLAFTMAWQVFVVMGGVTLVLPLTGLTTPFLAAGGSSLLA
+NWIIVGLVLRISNAARRPVVVDGMVNASGPGAGHLDPGTALPAAAVPPGGGEER
+>2_358
+MTEVISPARPRRNIELVLLLAALAIALGADLLGTIGTDAALDSTAWVPLGIFGAATLVLH
+VVLRLRAPYADPFMLPITALLNGLGLAMIHRLSQDAAMANPTSQLVWSVLAIVVASALLF
+LVRDHRVLRRWPYLFLAASGVLLLLPLVPGLGLSMYGARIWIDVGFGTFQPGEIAKITLA
+IFFAGYLSANRDLILLAGRRVGPVTFPRARDLGPLLAGWLLALGVLVFQRDLGSALLFFG
+MFMAMLYIATSRASWILLGLGLIAFGAALAFLFMPHVTARFEIWLRAFDPEIYHRNFGGS
+YQVVQGLFAMASGGLMGTGLGAGNPTQVPLSFSDMILTAIGEELGFVGLAAVLVLYFLLV
+TRMMRAALGVRDGFGKVLASGLAFTMAWQVFVVMGGVTLVLPLTGLTTPFLAAGGSSLLA
+NWIIVGLVLRISNAARRPVVVDGMVNASGPGAGHLDPGTALPAAAVPMRGGEAR
+>3_341
+MTEVISPPRPRRATELMLLLGAVALTLGADLLGTYTTTGALESTAWVPLTVFGCASLVLH
+AVLRLRARYADPFILPIATLLNGLGIAMIHRLSADTAAARPTSQLAWSVLAVLVAAALVF
+LVRDHRMLRRWPYVFLAVSGVLLLLPLVPGLGLSANGARIWINVGVGTFQPGEIAKITLA
+IFFAGYLSTNRDLILLAGRRVGPMTFPRMRDLGPLLVAWAVAMGVLVFQRDLGSALLFFG
+MFMAMLYIATSRASWVLLGLSLVAVGAAVAFLFLPHVTARFEIWLNAFDPEIYRRDFGGS
+YQVVQGLFAMASGGLLGTGLGGGNPTQVPLSFSDMILAAIGEELGLVGLSAVLVLYLLLV
+TRMARAALGVRDAFGKVLAAGLAFTMAWQVFVVMGGVTLVLPLTGLTTPFLAAGGSSLLA
+NWIILGLVLRISHAARRPAVVDGMVNASGPGAGHLDPGAALPEPAQRPGPWRAAAPAGGE
+AR
+>4_19
+MTEVISPARPRRNIELVLLLAALAIALGADLLGMIGTDAPLDSTAWVPLGIFGAATLVLH
+VVLRLRAPYADPFMLPITALLNGLGLAMIHRLSQDAAMANPTSQLAWSVLAIVVASALVF
+LVRDHRVLRRWPYLFLAASGVLLLLPLVPGLGLSMYGARIWIDVGFGTFQPGEIAKITLA
+IFFAGYLSANRDLILLAGRRVGPVTFPRARDLGPLLAGWLLALGVLVFQRDLGSALLFFG
+MFMAMLYIATSRASWILLGLGLIAFGAALAFLFMPHVTARFEIWLRAFDPEIYHRDFGGS
+YQVVQGLFAMASGGLMGTGLGAGNPTQVPLSFSDMILTAIGEELGFVGLAAVLVLYLLLV
+TRMMRAALGVRDAFGKVLASGLAFTMAWQVFVVMGGVTLVLPLTGLTTPFLAAGGSSLLA
+NWIIVGLVLRISNAARRPVVVDGMVNASGPGAGHLDPGTALPAAAVPPGGGEER

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000192.fa

@@ -0,0 +1,54 @@
+>0_20
+MTLVLRYAARSDVGRVRAKNDDSAYVGRHLVVLADGMGGHVGGDVASASTVLDLAPLDAV
+GYEDPATVLPDEIQNANLILNELVHANPKLAGMGTTCTAALLAGTTLHIAHIGDSRAYRL
+ANGEFSQVTTDHTFVQKLVDEGRLEAGEAPFHPNKNVLMRVLGDVDASPELDVFEVPVAP
+GERWLFCSDGLTDVVSPEKIHEVLRDSEALNQAVDTLVDLTLKGGAPDNVTVVAFEIAEG
+TAEELAPVPDVHLSEQALAAAHPPEVGPVSGLLLREDLDARPHLLVGAASNAVRTDRIPV
+VTRSSTRRRAAALLGETPVPENRPRRTAAVLTDGPDPDVAARPDPSAPPAAPRGTAAAVG
+SSSAATPAATAADQPSDEAAEASATAPTPAPATSGPAGGPEDGAARRRRGKDDRPVQYRR
+GWFIPVFTTLLALTLAAVAVWGYLWTQTQYYVGANDGRIAVFKGVSQRLGPLELSHVDRQ
+TDLPVDALPAYARDRVNAGMPARDVDHAEQIVAELRDSLHPNAPAPAGEPSERARPSTTP
+SSSSARPSDASGSTAPTSPASSPSATGGEAP
+>1_1989
+MTLVLRYAARSDVGRVRAKNDDSAYVGRHLVVLADGMGGHVGGDVASASTVLDLAPLDAV
+GYEDPATVLPDEIQNANLILNELVHANPKLAGMGTTCTAGLLAGTTLHIAHIGDSRAYRL
+ADGEFSQVTTDHTFVQKLVDEGRLEAGEAPFHPNKNVLMRVLGDVDASPELDVFEVPVAP
+GERWLFCSDGLTDVVPPEKIHEVLRDSEALNQAVDTLVDLTLKGGAPDNVTVVAFEIAEG
+TAEELAPVPDVHLSEQALAAAHPPEVGPVSGLLLREDLDARPHLLVGAASNAVKTDRIPV
+VTRSSTRRRAAALLGETPVPENRPRRTAAVLTDGPDPAAAPRPDASVPPAAPSGTAAAAG
+SSSAATPAATAADHPSDEAAEPMTTAPTPAPATAGPAGGPEDGAARRRRGKDDRPVQYRR
+GWFIPVFTTLLALTLAAVAVWGYLWTQTQYYVGANDGRIAVFKGVSQRLGPLELSHVDRQ
+TDLPVDALPAYARDRVNAGMPARDVDHAEQIVAELRDSLHPNAPAPAGEPSERARPSTTP
+SSSSARPSDASGSTAPTSPASSPSATGGEAP
+>2_357
+MTLVLRYAARSDVGRVRAKNDDSAYVGRHLVVLADGMGGHVGGDVASASTVLDLAPLDAV
+GYEDPATVLPDEIQNANLILNELVHANPKLAGMGTTCTAGLLAGTTLHMAHIGDSRAYRL
+ADGEFSQVTTDHTFVQKLVDEGRLEAGEAPFHPNKNVLMRVLGDVDASPELDVFEVPVAP
+GERWLFCSDGLTDVVSSEKIHEVLRDSEALNQAVDTLVDLTLKGGAPDNVTVVAFEIAEG
+TAEEMAPVPDVHLTEQALAAAHPPEVGPVSGLLLREDLDARPHLLVGAASNAVKTDRIPV
+VTRSSTRRRAAALLGETPVPENRPRRTAAVLTDGPDRDAAPRPDASAPPAAPSGTAAAAG
+SSSAAAPTATVADHPSDEAAEVSTRAATPAPATAGPAGGSQDGAARRRRGKDDRPVQYRR
+GWFIPVFTTLLALTLAAVAVWGYLWTQTQYYVGANDGRIAVFKGVSQRLGPLELSHVDRQ
+TDLPVDALPVYARDRVNAGMAARDVDHAEQIVAELRDSLHPDAPAPAGEPSERAQPSTTP
+SSSSARPSDASGSAAPTSPTASPSATGGEAP
+>3_340
+MTLVLHHAARTDVGRVRSKNDDSAYAGRHLAVLADGMGGHVGGDVASASTVLDLAHLDDV
+GYEDPATVLPDEIQNANLVLTSLVHANPKLAGMGTTCTAGLLAGEVLHMAHIGDSRAYRL
+KDGEFTQVTRDHTFVQKLVDEGRLEAAEAQFHPNKNVLMRVLGDVDASPELDVFEVPVAP
+GERWLLCSDGLTDVLSVERIRELIEPPATLAEAADALVAHTLRGGAPDNVTVVVFDVAEG
+SPEELEPAGEVHLSDEALAAAHPADRGPVSGRLLAEELDARPHELVGAADAAVHSDRIPV
+VTRSATRRRAGVLLGESPVPENRPRRTAAHLTAPNASDVDDAPAAPLTAAASPIETPAPA
+DAATETPAVDAPAPAPGPEVDPADADAAPAPAADPAPAHAVETGRTSRRRRRDRPVEYRR
+GWFIPVFTALLALILVVVAVWSYLWTQTQYYVGEDAGSVAVFQGVPQQLGPLELSHLDHT
+TDIPLDRLPAYAQERVGRGMAATDRAHADQIVEELRTVSDTAAKGGGTP
+>4_20
+MTLVLRYAARSDVGRVRAKNDDSAYVGRHLAVLADGMGGHVGGDVASASTVLDLAPLDAV
+GYEDPATVLPDEIQNANLILNELVHANPKLAGMGTTCTAGLLAGTTLYMAHIGDSRAYRL
+VDGEFCQVTTDHTFVQKLVDEGRLEAGEAPFHPNKNVLMRVLGDVDASPELDVFEVPVAP
+GERWLFCSDGLTDVVSPEKIHEVLRDSEALNQAVDTLVDLTLKGGAPDNVTVVAFEIAEG
+SAEELAPVPDVHLSEQALAAAHPPEVGPVSGLLLREDLDARPHLLVGAASNAVKTDRIPV
+VTRSSTRRRAAALLGETPVPENRPRRTAAVLTDGPGPAADAAPRPDASAPPAAPSGTAAA
+AGSSAAATPAATAADRPSDEAAEASTTAATPSPVTSGPAGGSEDGAARRRRGKDDRPVQY
+RRGWFIPVFTTLLALTLAAVAVWGYLWTQTQYYVGANDGRIAVFKGVSQRLGPLELSHVD
+RQTDLPVDALPAYARDRVNAGMAARDVDHAEQIVGELRDSLHPDAPAPAGEPSERARPST
+TPSSSSARPSDASGSAAPTSPASSPSATGGEAP

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000198.fa

@@ -0,0 +1,29 @@
+>0_35
+MMASKTPHQNVTFDLPTKDAGQDGDRTGHGYLALPASGKGPGVIVIQEWWGLVDHIKDVC
+DRLADLGFVALAPDLYGGWIAHDGDEAGEMMQNLPAEEGARQLAGAVDWLLARDEVTSQT
+VGAIGFCMGGGFVLALAAQQGDKVSAAVPFYGVGQGVPGDFSGVTAAVQGHYAEQDDSFP
+VEDARRQEQQIREESGADVEYFYYDAPHAFHNDENPQGNYRPEAAALAWDRAVSFLKEKV
+R
+>1_1999
+MMASKTPHQNVTFDLPTKDAGQDGDRTGHGYLALPASGKGPGVIVIQEWWGLVDHIKDVC
+DRLADLGFVALAPDLYGGWIAHDGDEAGEMMQNLPAEEGARQLAGAVDWLLARDEVTSQT
+VGAIGFCMGGGFVLALAAQQGDKVSAAVPFYGVGQGVTGDFSGVTAAVQGHYAEQDDSFP
+VEDARRQEQQIREESGADVEYFYYDAPHAFHNDENPQGNYRPEAAALAWDRAVSFLKEKV
+R
+>2_346
+MMASKTPHQNTTFDLPSKDASHDGDQVGHGYLALPESGSGPAVIVIQEWWGLVDHIKDVC
+DRLAAEGFVALAPDLYGGWIAHDGDEAGEMMQKLPAEEGARQLAGAVDWLLAREEVTSTT
+VGAIGFCMGGGFVLALAAQQGEKVSAAVPFYGVGQGVPGDFAGVKAAIQGHYGEQDSMFS
+VEDAKKQEQQIRDESGAEVEYFYYDAPHAFHNDDDPQGNYRPEAAALAWGRAVAFLKEKV
+R
+>3_288
+MMASKTPHQNVSFPLPTKDAAHGDQTGHGYLALPAAGKGPAVIVIQEWWGLVDHIKDVCD
+RLAEEGFVALAPDLFGGWIAHDGDEAGEMMQNLPAEEGARQLAGAVDWLLARDEVTSSRV
+EAIGFCMGGGFVLALAAQQGDKVSAAVPFYGVGQGVPGSFEGVTAAIQGHYAEQDDFFPV
+EDAKKQERQIREESGAEVEYFYYDAPHAFHNDENPQGNYRPEAAQLAWDRAVSFLKEKVR
+>4_30
+MMASKTPHQNVTFDLPTKDAGQDGDRTGHGYLALPASGKGPGVIVIQEWWGLVDHIKDVC
+DRLADLGFVALAPDLYGGWIAHDGDEAGEMMQNLPAEEGARQLAGAVDWLLARDEVTSQT
+VGAIGFCMGGGFVLALAAQQGDKVSAAVPFYGVGQGVPGDFSGVTAAVQGHYAEQDDSFP
+VEDAREQAQQIREESGADVEYFYYDAPHAFHNDENPQGNYRPEAAALAWDRAVSFLKEKV
+R

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000207.fa

@@ -0,0 +1,50 @@
+>0_50
+MSTQPPGLTTDAPDTPDDDPVREPLPTEALPIAPAGPRPEEPRAAVERLRAAARSRAAHP
+RAVRVRQLKGLKRMLTEHADRFVAALGTDLGKPATEALITEIVSVRSEVDHALLHLTDWM
+EPRPVKLPLALRPASAEVRPRPKGLVLVIGAWNYPVQLALAPVVGALAAGNTVVLSPSEK
+APATAAALRELVPQYLDSALVSVVAGGKECNTALLAEPWDHILYTGGERVGRIVYEAAAK
+TLSPVTLELGGKSPAVVTPSRNTGAMARRIAWAKFTNAGQTCVAPDYVLAVGEAALRQVT
+AELPAALREFYGDDPRASKDYGRLISAEHAERLREMLQADLDAGAELLVGGDVDVAGRYM
+APTVVTGVKPDGALMQEELFGPILPVLTVDTFQDALDFIAERPHPLAAYLFTDRPSYHRA
+FDDQVQAGGLGYDVGLLHAGIATLPFGGIGASGMGAYHGIHGFETFSHLRPSITKSDQVD
+TLKTAYPPYGRMKRALLPKML
+>1_2014
+MSTQPPGLTTDSSDTPDDDPVREPLPTEALPIAPAGPRPEEPRAAVERLRAAARSRAAHP
+RAVRVRQLKGLKRMLTEHADRFVAALGTDLGKPATEALITEIVSVRSEVDHALLHLTDWM
+EPRPVKLPLALRPASAEVRPRPKGLVLVIGAWNYPVQLALAPVVGALAAGNTVVLSPSEK
+APATAAALRELVPQYLDSALVSVVAGGKECNTELLAEPWDHILYTGGERVGRIVYEAAAK
+TLSPVTLELGGKSPAVVTPSRNTGAMARRIAWAKFTNAGQTCVAPDYVLAVGEAALRQVT
+AELPAALREFYGDDPRASRDYGRLISAEHAERLREMLQADLDAGAELLVGGDVDVAGRYM
+APTVVTGVTPDGALMQEELFGPILPVLTVDTFQDALDFIAERPHPLAAYLFTDRPSYHRA
+FDDQVQAGGLGYDVGLLHAGIATLPFGGIGASGMGAYHGIHGFETFSHLRPSITKSDQVD
+TLKTAYPPYGRMKRALLPKML
+>2_329
+MSTQHPGIATDSPVSSDDDLRPGLDAAPVGPAGEDGDDPVREPLPTEALPLAPAGPRPED
+PRAAVVRLRAAARSRAAHPRAVRVRQLKGLKRLLTEGQDRLVAALGQDLGKPATEALMTE
+VVSVRSEVDHALLHLTDWMEPRPAKLPLALRPASAEVRPRPKGLVLIIGAWNYPVQLTLA
+PLVGALAAGNAVVVSPSEKAPATAAALRELVAEHLDSALVSVVEGGKDCNTALLAEPWDH
+ILYTGGERVGRIVYEAAAKTLSPVTLELGGKSPAVVTPSRNTGAMARRIAWAKFTNAGQT
+CVAPDYVLAVGDVAHRQVVEELPGALREFYGADPRASKDYGRLVSAEHAERLRDLLREDL
+DAGAVVLVGGDVDVAGRYMAPTVVTGVRPDGALMREEIFGPILPVLRVDTFQEALDFIAE
+RPHPLAAYLFTDRPSYHRAFDDQVQAGGLGYDVGLLHAGIATLPFGGVGASGIGAYHGVH
+GFETFSHLRASITKSDQVDTLKTAYPPYGWVKRTMIPKML
+>3_268
+MSTQPPGLTTDSPDSPADDPVREPLPTEALPIAPAGPRPEEPRAAVERLRAAARSRAAHP
+RAVRVRQLKGLKRMLTEHADRFVAALGTDLGKPSTEALITEIVSVRSEVDHALLHLTDWM
+EPRPVKLPLALRPASAEVRPRPKGLVLVIGAWNYPVQLALAPVVGALAAGNTVVLSPSEK
+APATAAALRELVPQYLDSALVSVVAGGKDCNTELLAEPWDHILYTGGERVGRIVYEAAAK
+TLSPVTLELGGKSPAVVTPSRNTGAMARRITWAKFTNAGQTCVAPDYVLAVGEAALRQMT
+AELPAALREFYGDDPRASRDYGRLISAEHAERLREMLQADLDAGAELFVGGDVDVAGRYM
+APTVVTGVKPDGALMQEELFGPILPVLTVDTFQDALDFIAERPHPLAAYLFTDRPSYHRA
+FDDQVQAGGLGYDVGLLHAGIATLPFGGIGASGMGAYHGIHGFETFSHLRPSIAKSDQVD
+TLKTAYPPYGRMKRALLPKML
+>4_45
+MSTQPPGLTTDSPDSPADDPVREPLPTEALPIAPAGPRPEEPRAAVERLRAAARSRAAHP
+RAVRVRQLKGLKRMLTEHADRFVAALGTDLGKPATEALITEIVSVRSEVDHALLHLTDWM
+EPRPVKLPLALRPASAEVRPRPKGLVLVIGAWNYPVQLALAPVVGALAAGNTVVLSPSEK
+APATAAALRELVPQYLDSALVSVVAGGKECNTALLAEPWDHILYTGGERVGRIVYEAAAK
+TLSPVTLELGGKSPAVVTPSRNTGAMARRIAWAKFTNAGQTCVAPDYVLAVGEAALRQVT
+AEIPAALREFYGDDPRASKDYGRLISAEHAERLREMLQTDLDAGAELLVGGDVDVAGRYM
+APTVVTGVRPDGALMQEELFGPILPVLTVDTFQDALDFIAERPHPLAAYLFTDRPSYHRA
+FDDQVQAGGLGYDVGLLHAGIATLPFGGIGASGMGVYHGIHGFETFSHLRPSITKSDQVD
+TLKTAYPPYGRMKRALLPKML

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000210.fa

@@ -0,0 +1,40 @@
+>0_53
+MAQPEPVRLVPGGAVDRPAEQALLAAAAACDGDVDAMVELLRAASGAPSGEDAAPLDLPL
+TGAGRTREQWELLASVAAQDLSAARVLEPHLDALSILSQAGVPAPAGLLGVYASESGGRT
+PALRPAPDGPDTAWLLDGEKPWCSLADRCAAAVVTGREADGTRRAVLVDLSHPGVAETDS
+AWPALGLAPIRTVGLAFDAVPGSAVGGAEWYLRRPGFAWGGIGVAAVWFGGAVGIARTLR
+NATAARAAAEAEGRGPGPDQIGQAALGRVDRLLHAMAALLARAADDVDAGRLDHGRGMVE
+ADRIRGTVAQLCTEVMDVVGQATGPGPLTGSAAHARAVADLQVYLRQHHGHRDDARLGAA
+LLTGETDGGWTW
+>1_2017
+MAQPEPVRLVPGGAVDRPAEQALLAAAAACDGDVDAMVELLRAASGAASGEDAAPLDLPL
+TGAGRTREQWELLASVAAQDLSAARVLEPHLDALSILSQAGVPAPAGLLGVYASESGGRT
+PALRPAPDGPDTAWLLDGEKPWCSLAGRCAAAVVTGREADGTRRAVLVDLSHPGVAETDS
+AWPALGLAPIRTVGLAFDAVPGIAVGGAEWYLRRPGFAWGGIGVAAVWFGGAVGIARTLR
+NATAARAAAEAEGRGPGPDQIGQAALGRVDRLLHAMAALLARAADDVDAGRLDHGRGMVE
+ADRIRGTVAQLCTEVMDVVGQATGPGPLTGSAAHARAVADLQVYLRQHHGHRDDARLGAA
+LLTGETDGGWTW
+>2_323
+MAQPEPVRLAPPGRTAEPDAARPAERALLAAASACDGDVAPMLALLGAGRAPDTEASAPD
+AAAPLELPLTGEGRTRQQWELLASVAAQDLSAARVLEPHLDALSILSQASVPAPAGLLGV
+YASESGGRTPRLTPAPHDDDAGSASDGRPDAGPDAWLLDGEKPWCSLADECAAAVITGRE
+ADGTRRAVLVDLDHPGVAETSSAWPALGLAPIRTVGLGFDAVPGTAVGGPEWYLRRPGFA
+WGGIGVAAVWFGGAVGIARTLRDATRSRAAAEAEGRGPGPDQVAQAALGRVDRLLHAMAA
+LLARAAEDVDAGRLDHGRGMVEADRIRGTVAQLCTEVVDVVGQATGPGPLTGSAAHARAV
+ADLQVYLRQHHAHRDDARLGRALLDGDADGGWTW
+>3_264
+MSETPWVHLPGAEGDGRPAAPTEAEAALLAAARDGEDGEAGIEPILALLSGDDAAASLDL
+PLTGAGRTRRQWELLASVGAVSLPAARVLEPHLDALSILDQAGVPAPRGVLGVYASESGG
+VSPSARPAPGAAVGDEDAVWRLDGDKPWCSLADRCTAAVVTARQEDGLRRAFLVDLGEPG
+MEVADPRWPSLGLAPITTVGLRFADVPAVPVGGPEWYLRRPGFAWGGIGVAAVWFGGAVH
+VARTLRTSLERRTAAASDGSGPGPDQVGLAALGRVDRHLHAMASLLGRAADDVDAGRLDH
+AHGLVEADRIRGTVAQLCTEVLDVVGQATGPGPLTGDAAHARAVADLQVYLRQHHGPRDD
+ARLAESLLAADPAERAELQPW
+>4_48
+MAQPEPVRLVPGGAVDRPAEQALLAAAAACDGDVDAMVELLRAASGAASGEDAAPLDLPL
+TGAGRTREQWELLASVAAQDLSAARVLEPHLDALSILSQAGVPAPAGLLGVYASESGGRT
+PALRPVPDGPDTAWLLDGEKPWCSLADRCAAAVVTGREADGTRRAVLVDLSHPGVAETDS
+AWPALGLAPIRTVGLAFDAVPGSAVGGAEWYLRRPGFAWGGIGVAAVWFGGAVGIARTLR
+NATAARAAAEAEGRGPGPDQIGQAALGRVDRLLHAMAALLARAADDVDAGRLDHGRGMVE
+ADRIRGTVAQLCTEVMDVVGQATGPGPLTGSAAHARAVADLQVYLRQHHGHRDDARLGAA
+LLTGETDGGWTW

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000212.fa

@@ -0,0 +1,49 @@
+>0_56
+MTLPTPVRLGRMQTSDAAPAADDDRTPSAPGPARLLDRSAVRLREDLAAGELSAREVTEA
+ALAAAQTHADLGAFALLDAEGARARAAELDAAHPRVAPRAVPGPRTSPAPDDDGAPASLH
+GLPLAYKDLIDVRGMPTRFGSALLADAPPAAQDDPLALRLRAAGTVTLGKTTVPEFGLDS
+YSENLVTAPARNPLDPTRTAGGSSGGAAAAVAAGILPFAPGSDGGGSIRIPAAACGLVGL
+KPGRGELPMDEHADTVRNLTVSGPLAHTVEDAALLYDVLLSPEGLPGRVLPDLRRTVETA
+RAGGAVDARRIGVTTASPFASDLEISLARPAVTALTKAAAALDAGGHAVEDLSPYYGEDY
+HRDFRTVWTAGLLRAPLPEDAEAHVGAVAAHFLRTARAAGRAELDDAAHRLEEWARGVRA
+QFAAVDVVMTPVLATAPPPVGHFLAMEPEANYEAQCAFTPYTSMVNVLGLPAVAVPVLRD
+ERGLNWSVQLIGRPGTSAPLLALAAHLELLLAG
+>1_2020
+MTRATPVRLGRMQTSDAAPAADDDDRTPSAPGPARLLDRSAVRLREDLAAGELSAREVTE
+AALAAAQAHADLGAFALLDAEGARTRAAELDAAHPRVAPRAVPGPHTSPAPDDDGAPASL
+HGLPLAYKDLIDVRGMPTRFGSALLADAPPAAQDDPLALRLRGAGTVTLGKTTVPEFGLD
+SYSENLVTAPARNPLDPTRTAGGSSGGAAAAVAAGILPFAPGSDGGGSIRIPAAACGLVG
+LKPGRGELPMDEHADTVRNLTVSGPLAHTVEDAALLYDVMLTPEGLPGRVLSDLRRTVET
+ARAGDAVDVRRIGVTTASPFASDLEISLARPAVTALTKAAAALDAGGHAVEDLSPYYGED
+YHRDFRTVWTAGLLRAPLPEDAEAHVGAVAAHFLRTARAAGRAELDDAAHRLEEWAHGVR
+AQFAAVDVVMTPVLATAPPPVGHFLAMEPEANYEAQCAFTPYTSMVNVLGLPAVAVPVLR
+DERGLNWSVQLIGRPGTSAPLLALAAHLELLLAG
+>2_320
+MQLRDALAAGELSAREVTQAALDAAERHAGLGAFTLLDPEGALARADELDDDGARASLHG
+LPLAYKDLTDVRGLPTRHGSALLAGAPAAEEDAPLVRRLVGAGTVTLGKTTVPEFGLDSY
+SENLVSAPARNPLDPARTPGGSSGGSAAAVAAGILPFAPGSDGGGSIRIPAAACGLVGFK
+PGRGELPVDEPADTVRNLTVSGPLAHTVEDAALLYDELLTPEGLPGRVLADLRRTVETAR
+AGGAVEGRRIGVTTASPFAPDVPITLARPAVTALTKAAAALSAGGHAVQDLHPAYGEEYH
+RDFRTVWTSGLLRAPLPEDAEERVGAIAAHFLRTARSAGRQEIDDAVRRLEAWARGVRGQ
+FAAVDVVMTPVLAAAPPPVGHFLAMEPEDNYAAQCAFTPYTSMVNVLGLPAASVPVLRDE
+RGLSWSVQLIGRPGTSGALLALAAHLELLLAG
+>3_262
+MAVSEPLSPSDQPTSPTPAPDAPARLLGRTALALRDALAAGELSAAEVTEASLAAAHAHA
+GLGAFVLLDEDGARVRAAALDARPDDAAGASLRGLPLAFKDLTDVAGLPTRMGSAVLAQA
+PAAAEDDPLTTRLRAAGTVLLGKTTVPEFGLDAYSENPVDPPARNPLDPSRTPGGSSGGS
+AAAVAAGILPFAPGSDGGGSVRIPAAACGLVGLKPGRGTVPTDPGEDAVTNLTVSGPLAH
+TVEDAALLFDVMTSPEGLEGRTGPDLRRFLDARAAGEPVAPVRIGVSTASPFSPDLEITL
+ARPALSALARSGAALAAGGHAVDEFVPHYGERYHRDFRTAWTSGLLKAPLPDGAEALVGP
+VAASFLASARAAGPEQIATAIGRLEAWAADVRGQFAAVDVVMTPVLAFAPPAIGHFLALD
+PEENYAEQCRFTPYTSMVNVLGLPAVAVPVLRDEAGLSWSVQLVGRPGAEGRLLELAGHL
+RLLLAG
+>4_51
+MTLPTPVRLGRMQTSDAAPAADDDRTPSAPGPARLLDRSAVRLREDLAAGELSAREVTEA
+ALAAAQTHADLGAFALLDAEGARTRAAELDAAHPRVAPRAAPGPHTSPAPDDDGAPASLH
+GLPLAYKDLIDVRGMPTRFGSALLADAPPAAQDDPLALRLRAAGTVTLGKTTVPEFGLDS
+YSENLVTAPARNPLDPARTAGGSSGGAAAAVAAGILPFAPGSDGGGSIRIPAAACGLVGL
+KPGRGELPMDEHADTVRNLTVSGPLAHTVEDAALLYDVLLSPEGLPGRVLPDLRRTVETA
+RAGGAVDARRIGVTTASPFASDLEISLARPAVTALTKAAAALDAGGHAVEDLSPYYGEDY
+HRDFRTVWTAGLLRAPLPEDAEAHVGAVAAHFLRTARAAGRAELDDAAHRLEEWARGVRA
+QFAAVDVVMTPVLATAPPPVGHFLAMEPEANYEAQCAFTPYTSMVNVLGLPAVAVPVLRD
+ERGLNWSVQLIGRPGTSAPLLALAAHLELLLAG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000217.fa

@@ -0,0 +1,25 @@
+>0_63
+MFVLTINQRDTLDAGDRVDTFLRALQDVPGLDDAVVLPFQRAVGDELIGAVEDPRVAVDV
+ALRALRQRRWNVGVGVGTVTHADGAAGAPASGDLHDAGGPGLAAARRAVEAAAVSTARIP
+LAVRGRDEEAAAEAEAVLRLVGQLVWSRTDAEWAVLDLLVPGVRGQQKPAAAALGITAQA
+VSQAVQRSYWNEEHACRPAAARLLTLAGG
+>1_2027
+MFVLTINQRDTLDAGDRVDTFLRALQDVPGLDDAVVLPFQRAVGDELIGAVEDPRVAVDV
+ALRALRQRRWNVGVGVGTVTHADGAAGAPASGDLHDAGGPGLAAARRAVEAAAVSTARIP
+LAVRGRDEEAAAEAEAVLRLVGQLVWSRTDAEWAVLDLLVPGVRGQQKPAAAALGITAQA
+VSQAVQRSYWNEEHACRPAAARLLTLAGG
+>2_312
+MLVLTINQRDTLDAGDRVDAFLRSLGDAPGLAGAVALPFQRAVGDELIGAVTDPAAAVEV
+ALRALRERRWNVGIGVGALRGADGTEGAPSSGSLDDAAGPALAHARRAVEAAAVSTARIP
+LAVRGADAQASAEAEAVLRLVGQLVWSRTDAEWAVLDLLVPGVRGQQKPAADALGITAQA
+VSQAVQRAYWNEEHACRPAASRLLALAEEG
+>3_253
+MFVLTLNQRDTPDAGDRVDALLRELTDAAAAVPGLRSPALPFQRSVGDELVGVLEDPHAA
+VDVALRALRQRRWNVGIGVGTVCHADGSAGIPASGDLHHAGGPGLAAARRAVEAAALSTA
+RIPLAVRGRDAEAAAEAEAVLKLIGQLVWTRTAAEWSVLDLLVPGVRGQQKPAAQALGIT
+TQAVSQAVQRSFWNEEHACRPAAARLLALAAG
+>4_57
+MFVLTINQRDTLDAGDRVDTFLRALQDVPGLGDAVVLPFQRAVGDELIGAVEDPRVAVDV
+ALRALRQRRWNVGVGVGTVTHADGAAGAPASGDLHDAGGPGLAAARRAVEAAAVSTARIP
+LAVRGRDEEAAAEAEAVLRLVGQLVWSRTDAEWAVLDLLVPGVRGQQKPAAAALGITAQA
+VSQAVQRSYWNEEHACRPAAARLLTLAGG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000219.fa

@@ -0,0 +1,40 @@
+>0_66
+MSDDHATDRPRTAADAEPGAPAEPGPAVAHPVDWAFAARTARSLAAAGPRFTPREATREA
+EGLRAAAEAAVPHVHRLTGLEAARDLRDSQVLVVDRPTWSRAATQSFATLLDPTFAHLRD
+TRPREHAATTRVTRHATALEMGGILAWMSGKILGQYDPFIALPGPGGTAAGPAGGRLLLV
+APNVAQVRAEINVDPADFRLWVCLHEQTHRVQFAAAPWLREHLRGEITALTVGLFDKAES
+LPERLRTALAAANPLGREADAGRTGTRDGHDAQDAVAARPAPGLLGAIQDEEDRERLSRL
+TAVMSLLEGHANVVMDGVDSSVVSSVKTIRRRFDERGDRRSPLDRMLRRLLGMDAKMAQY
+RDGQRFVAAAVAELGMAGFNVVWDAPELLPSEAELHAPETWVARIRAQA
+>1_2030
+MSDDHATDRPRAAADAEPGAPAEPGPAVAHPVDWAFAARTARSLAAAGPRFTPREATREA
+EGLRAAAEAAVPHVHRLTGLEAARDLRDSQVLVVDRPTWSRAATQSFATLLDPTFAHLRD
+TRPREHAAATTRVTRHATALEMGGILAWMSGRILGQYDPFIALPGPGGTAGGPAGGRLLL
+VAPNVAQVRAEINVDPADFRLWVCLHEQTHRVQFAAAPWLREHLRAEITALTVGLFDKAE
+SLPERLRTALAAANPLGREADAGRTGARDGHDAQDAAPARPTPGLLGAIQDEEDRERLSR
+LTAVMSLLEGHANVVMDGVDSSVVSSVKTIRRRFDERGDRRSPLDRMLRRVLGMDAKMAQ
+YRDGQRFVAAAVAQLGMAGFNVVWDAPELLPSEAELHAPETWVARIRAQA
+>2_307
+MDTAPADRVPQPVDWAFAARTAAALAPAGPRFTAREAAREAAGLRAAAEASVPHVHRLTG
+LAAAEDLRDSQVLVVDRPTWSASATQSFATMLEPTFAHLQATRPQEYQAALTPVARHATA
+LEMGGILAWLSGKVLGQYDPFAGPSGGRLLLNAPSVAQVRTEINVDPEDFRLWVCLHEQT
+HRVQFAAAPWLRGHLQEQITALASGLFDKAESLPERLRSALAAANPLGRGSGAGAASTGP
+ASGPDDGRPGPAQAGGDVVPARGAGLLGALQDEEDRARLSHVTAVMSLLEGHANVVMDGV
+DADVVSSVKTIRRRFEDRADRRSPLDRMLRRLLGMDAKMAQYRDGQRFVSAAVAELGMDG
+FNVVWDAPELLPTEDELHRPERWTARVRAQA
+>3_250
+MTADQPVPSPAHPVDWDAAARAAGSLAAAGPRIGTREARREAEGLRAAAAASVAHVHRLT
+GLAAAEDLRDSQVLVVDRPTWSLANTQSFAGLLEPSFAHLRATRPQEYALTTAPLTRRAA
+ALEMGGILAWLSSKVLGQYDPFSALPGPDGVPAGPAGGRLLLVAPNVAQVRREIHVDPAD
+FRLWVCLHEQTHRVQFAAAPWLRGHLQGEITALTGGLFDKAESLPERLRSALAAANPLGA
+STSPGAGRAGQDDGAAGPGGRPALGLLGAIQDEEDRARLSRLTAVMSLLEGHANVVMDAV
+DSSVVSSVKTIRRRFDARGDRRSGLDRLLRRLLGMDAKMAQYRDGQRFVDAAVAELGRDG
+FNVVWDAPELLPSEEEIHAPDRWVARIRAQA
+>4_60
+MSDDHATDRPRTAADAEPGAPAEPGPAVAHPVDWAFAARTARSLAAAGPRFTPREATREA
+EGLRAAAEAAVPHVHRLTGLEAARDLRDSQVLVVDRPTWSRAATQSFATLLDPTFAHLRD
+TRPREHAAATTRVTRHATALEMGGILAWMSGRILGQYDPFIALPGPGGTAAGPAGGRLLL
+VAPNVAQVRAEINVEPADFRLWVCLHEQTHRVQFAAAPWLREHLRAEITALTVGLFDKAE
+SLPERLRTALAAANPLGREADAGRIGTRDGHDAQDAAAARPAPGLLGAIQDEEDRERLSR
+LTAVMSLLEGHANVVMDGVDSSVVSSVKTIRRRFDERGDRRSPLDRMLRRLLGMDAKMAQ
+YRDGQRFVAAAVAELGMAGFNVVWDAPELLPSEAELHAPETWGARIRAQA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000230.fa

@@ -0,0 +1,20 @@
+>0_80
+MTDQPEMSPLTEPEREWVRVRRDFAAQEGVDHLDLDAVAAYYDAVLARSQAEADELDPEE
+LAVLLDVVAVLLGEHLGARHGMQWVTVADEEGPALALRDTLSDAVVFPQPVVGQSWNDQA
+TGEWMGGYVDWLGEQLQQIRADAGTLPGA
+>1_2044
+MTDQPEMSPLTEPEREWVRVRRDFAAQEGVDHLDLDAVAAYYDAVLARSQAEAEELDPEE
+LAVLLDVVAVLLGEHLGARHGMQWVTVADEEGPALALRDTLSDAVVFPQPVVGQSWNHQA
+TGEWMGEYVDWLGEQLQQIRADAGTRPGA
+>2_292
+MTEQPEMHPLSEPEQEWVRVRREFAAQEGVDHLDLDAVAAYYDGVLARSVSEAEALDPDE
+LAVLLDVVAVLLGEHLGARHGMQWVTVSDDEGPALALRDTLSDAVVFPQPAVGQAWNEQV
+TGAWLGEYVDWLGEQLQGIRAGDRPDGVAQQG
+>3_237
+MSEQQIRPLTAAEQEWVAVRRDFAAQEGTGHLDLDAVDAYHGRLLARSRSEDVDPDELGV
+LLDVVAVLLGEHLGARHGLAWVAVTEGDATDLGLRDPLSDAVVFPQSVVAQHWNDGDAHW
+IPGYVDWLGAQLAPLREERRAAEG
+>4_75
+MTDQPEMSPLTEPEREWVRVRRDFAAQEGVDHLDLDAVAAYYDAVLARSQAEAEELDPEE
+LAVLLDVVAVLLGEHLGARHGMQWVTVADEEGPALALRDTLSDAVVFPQPVVGQSWNHQA
+TGEWMGEYVDWLGEQLQQIRADAGTRPGA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000234.fa

@@ -0,0 +1,25 @@
+>0_85
+MTTSNNPDEIRADIERTRRELGQDVDALAEKVSPTKAVSRQTNRIKDGFIHAKENIMGSP
+EQHRHEPSLGDRAHAVVDDARASAYDAAGQAQDRLGDAGDRVSEWADDAQHALHQAPAQL
+RGRTAGNPLAAGLIAFGAGLLLSSLIPASRAEQRAAEGLKDQAAPLVDEAKQAAQQLRED
+LEPAAREAAGSVKESAAEAASHLKEQGTDTAQGLKAESQDAARQVKDTAKDA
+>1_2049
+MTTSNNPDEIRADIERTRRELGQDVDALAEKVSPTKAVSRQTNRIKDGFIHAKENIMGSP
+EQHRHEPSLGDRAHGVIDDARASAYDAAGQAQDRLGDAGDRVSEWADDAQHALHQAPAQL
+RGRTAGNPLAAGLIAFGAGLLLSSLIPASRAEQRAAEGLKDQAAPLVDEAKQAAQQLRED
+LEPAAREAAGSVKESAAEAASHLKEQGTDTAQGLKAESQDAARQVKDTAKDA
+>2_287
+MTTSNNPDEIRAEIERTRHQLGQDVDALAEKVSPTKAVSRQTNRMKDGLLSVKENIMGSP
+EDHGRQPSMGDRAHAAADDARASMHGAADQARDAMGHASDRVSGWADDAQHAVQQAPAQL
+RGRTAGNPLAAGLIAFGAGLLVSSLIPASRVEQRAAEGLKEQAAPLVDEAKQVAQQLRED
+LEPVARDAAQSVKESATEAVDHVKADGADKAQDLKAESQDAARQVKGAAQDG
+>3_233
+MTTSSNPDEIRAEIERTRHALGQDVDALAEKVSPTKAVSRQTNRVKDGFITVKENIMGTP
+EHHEGPGAVDRARFAAQDAAGQVQGTAHDVADQARGYAQQAGEAASQWVDDAQHAVQQAP
+AQVRGRTAGNPLAAGLIALGAGWLIGSLIPASPVEKRAAERVKDQAAPLLESAKQEAAQV
+AQDVREQVEPEVRDAAASLKDSAAESVQSLKSEGAEKAQDLKGSSQDAAQQVKHAAKHA
+>4_80
+MTTSNNPDEIRADIERTRRELGQDVDALAEKVSPTKAVSRQTNRIKDGFIHAKENIMGSP
+EQHRHEPSLGDRAHGVIDDARASAYDAAGQAQDRLGDAGDRVSEWADDAQLALQQAPAQL
+RGRTAGNPLAAGLIAFGAGLLLSSLIPASRVEQRAAEGLKEQAAPLVDEAKQAAQQLRED
+LEPAAREAAGSVKESAAEAASHLKEQGTDTAQDLKAESQDAARQVKDTAKDA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000236.fa

@@ -0,0 +1,25 @@
+>0_87
+MTPERLAAAFDGPSPALAATLLGCRLTVVAPDGAVTVRLTETEAYGNAGADPGAHSFRGR
+TERNAALFGPPRRTYVYLNYGIHRCLNLVGHPEGEAGGVLLRAAEVLAGGDLAVARRGRD
+TGPKLLSGPGNLGQGLGITLEMGHAPVEIVAAPPEVADDGGTSARLAAPAAPARFLLAPP
+APRDPAEPPIEVVTGPRVGVSGEGGSVRFPWRFSVAGHRSVSAFRRGRNVPD
+>1_2051
+MTPERLAAAFDGPSPALAATLLGCRLTVVAPDGAVTVRLTETEAYGNAGADPGAHSFRGR
+TERNAALFGPPRRTYVYLNYGIHRCLNLVGHPEGEAGGVLLRAAEVLAGGDLAVARRGRD
+TGPKLLSGPGNLGQGLGITLEMGHAPVEIVAAPPEVADDGGTPARLAAPAAPARFLLAPP
+APRDPAAPPIEVVTGPRVGVSGEGGSVRFPWRFSVAGHRSVSAFRRGRNVPD
+>2_285
+MTPERLAAAFDGPSPALAATLLGCRLTVVAPDGAVTVRLTETEAYGDAGADPGAHSFRGR
+TERNAALFGPPRRTYVYLNYGIHRCLNLVGHPEGEAGGVLLRAAEVLAGGDLAVARRGRD
+TGLKLLSGPGNLGQGLGITLEMGHAPVEIVAAPPEVADDGGTPARLAAPARFLLAPPASR
+DPAEPPIEVVTGPRVGVSGEGGSVRFPWRFNVAGHRSVSAFRRGRNVPD
+>3_231
+MTPERLAAAFDGPTPALAATLLGCRLTVVAPDGAVTVRLTETEAYGNAGADPGAHSFRGR
+TERNAALFGPPRRTYVYLNYGIHRCLNLVGHPEGEAGGVLLRAAEVLAGGDLAVARRGRD
+TGLKLLSGPGNLGQGLGITLQMGHVPVEIVAAPPEVADDGGTPARLAAPARFLLAPPASR
+DPAEPPIEVVTGPRVGVSGEGGSVRFPWRFSVAGHRSVSAFRRGRNVPD
+>4_82
+MTPERLAAAFDGPSPALAATLLGCRLTVVAPDGAVTVRLTETEAYGNAGADPGAHSFRGR
+TERNAALFGPPRRTYVYLNYGIHRCLNLVGHPEGEAGGVLLRAAEVLAGGDLAVARRGRD
+TGPKLLSGPGNLGQGLGITLEMGHAPVEIVAAPPEVADDGGTSARLAAPAAPARFLLAPP
+APRDPAEPPIEVVTGPRVGVSGEGGSVRFPWRFSVAGHRSVSAFRRGRNVPD

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000242.fa

@@ -0,0 +1,50 @@
+>0_93
+MTTQNSASAAVDHHDQQAVRAAKREQLLASGREAYPVQVPRTHALAEVRERFDGHEPDWT
+SGETVSVTGRVVFLRNTGKLCFATLQESGADGEAVRLQVMVSLAAVGEESLAEWKKVVDL
+GDFLSVTGEVIVSRRGELSIMASAWEMASKALRPLPVLHADLNEETRVRQRYADLIVREE
+ARRMVYTRAKVTSAVRRTLEGHGYVEVETPMLQLVHGGALARPFETHLNAFDQPMTLRIA
+TELYLKRAVVGGIDRVFEIGRVFRNEGVDSTHSPEFTTLESYEAWADMHVMAERMQEIIL
+NAADAVGAGRRLETAKGVIDLDGEWAWVAVYPGLSEAVGREITPETDAETLRAIAAEHEV
+KVDPAWDAEKLVIELFGEIVEPTLMNPTFVYDYPPAAQPLARPHRSDDRVIEAWDLIIGG
+MERGTAFSELIDPVIQRERLTAQSAMAAAGDDEAMQLDEDFLRALEYGAPPMGGIGLGID
+RLVMLFTDAGIRETILFPLLKPEA
+>1_2057
+MTTQNSASAAVDHHDQQAVRAAKREQLLASGREAYPVQVPRTHALAEVRERFDGHEPDWT
+SGETVSVTGRVVFLRNTGKLCFATLQESGADGEAVRLQVMVSLAAVGEESLAEWKKVVDL
+GDFLSVTGEVIVSRRGELSIMASAWEMASKALRPLPVLHADLNEETRVRQRYADLIVRDE
+ARRMVYTRAKVTSAVRRTLEGHGYVEVETPMLQLVHGGALARPFETHLNAFDQPMTLRIA
+TELYLKRAVVGGIDRVFEIGRVFRNEGVDSTHSPEFTTLESYEAWADMHVMAERMQEIIL
+NAADAVGAGRRLETAKGVIDLDGEWAWVAVYPGLSEAVGREITPDTDAGTLRAIAAEHEV
+KVDPAWDAEKLVIELFGEIVEPTLMNPTFVYDYPPAAQPLARPHRSDDRVIEAWDLIIGG
+MERGTAFSELIDPVIQRERLTAQSAMAAAGDDEAMQLDEDFLRALEYGAPPMGGIGLGID
+RLVMLFTDAGIRETILFPLLKPEA
+>2_279
+MTSQNSANPQTSAVDHHDQQAVRAAKREQLLAAGREAYPVQVPRTHTLTEVREQFDGHEP
+DWASGETVSVTGRVVFLRNTGKLCFATLQESGVDGEAVRLQVMVSLAAVGEDSLAQWKKA
+VDLGDFLSVTGEVIVSRRGELSIMASAWEMASKALRPLPVLHADLNEETRVRQRYADLIV
+RDEARRMVYTRAKVTSAVRRTLEGHGYVEVETPMLQLIHGGALARPFETHLNAFDQPMTL
+RIATELYLKRAVVGGIDRVYEIGRVFRNEGVDSTHSPEFTTLESYEAWADMHVMAERMQE
+IILAAADAVGAGRRIETDRGVIDLDGEWAWVSVYPGLSEAVGREITPDTDAETLRAIAAE
+HEVKVDPAWDAQKLVIELFGEIVEPTLMNPTFVHDYPPAAQPLARPHREDGRVIEAWDLI
+IGGMERGTAFSELIDPVIQRERLTAQSAMAAAGDDEAMQLDEDFLRALEYGAPPMGGIGL
+GIDRLVMLFTDAGIRETILFPLLKPEA
+>3_225
+MTPENPAPAAVDHHDQQAVRAAKREQLLTSGRQAYPVQVPRTHSLAAVRAKFDGKHEAGW
+EEGPEVSVTGRVVFLRNTGKLCFATLQESGAAGEAVRLQVMVSLAEVGEESLGEWKKSVD
+LGDFLSVTGRVIVSRRGELSIQAAAWEMASKALRPLPVLHADLNEETRVRQRYTDLIVRD
+EAREMVYKRAKITSAVRRTLESHGYVEVETPILQLVHGGAQARPFETHLNAFDQDMTLRI
+ATELYLKRAVVGGIERVYELGRVFRNEGVDSTHSPEFTTLESYEAWADMHVMADRIKEII
+LNAADAIGAGRRIETSRGVIDLDGEWAWVSVYPGLSEAVGREVTPDTDAETLRAIAAEHD
+VKVDPKWDAQKLVIELFGEIVEPTLMNPTFVYDYPPAAQPLARPNRDDDRVIEAWDLIIG
+GMERGTAFSELIDPVIQRERLTEQSLKAADGDDEAMQLDEDFLRALEYGAPPMGGIGLGI
+DRLVMLFTDAGIRETILFPLLKPEA
+>4_88
+MTTQNSASAAVDHHDQQAVRAAKREQLLASGREAYPVQVPRTHALAEVRERFDGHEPDWA
+SGETVSVTGRVVFLRNTGKLCFATLQESGADGEAVRLQVMVSLAAVGEESLADWKKVVDL
+GDFLSVTGEVIVSRRGELSIMASAWEMASKALRPLPVLHADLNEETRVRQRYADLIVREE
+ARRMVYTRAKVTSAVRRTLEGHGYVEVETPMLQLVHGGALARPFETHLNAFDQPMTLRIA
+TELYLKRAVVGGIDRVFEIGRVFRNEGVDSTHSPEFTTLESYEAWADMHVMAERMQEIIL
+NAADAVGAGRRLETAKGVIDLDGEWAWVAVYPGLSEAVGREITPETDAETLRAIAAEHEV
+KVDPAWDAEKLVIELFGEIVEPTLMNPTFVYDYPPAAQPLARPHRSEDRVIEAWDLIIGG
+MERGTAFSELIDPVIQRERLTAQSAMAAAGDDEAMQLDEDFLRALEYGAPPMGGIGLGID
+RLVMLFTDAGIRETILFPLLKPEA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000253.fa

@@ -0,0 +1,30 @@
+>0_106
+MSKRIQAIDVDVFYGKFKAVEGVNIDIAPRSVTAFIGPSGCGKTTFLRSINRMHEVLPGA
+TVDGQLLLDGEDIYGPGVDPVRVRSQIGMVFQRPNPFPTMSIRDNVLAGYKLNGTRLNKS
+RADELVEKSLRGANLWNEVKDRLDKPGSGLSGGQQQRLCIARSIAVQPDVILMDEPCSAL
+DPISTLAVEDLINELKEEYTVIIVTHNMQQAARVADKTAFFNIQGVGKPGKLIEYDDTNV
+IFNNPSSQQTEDYVSGRFG
+>1_2070
+MSKRIQAIDVDVFYGKFKAVEGVNIDIAPRSVTAFIGPSGCGKTTFLRSINRMHEVLPGA
+TVDGQLLLDGEDIYGPGVDPVRVRSQIGMVFQRPNPFPTMSIRDNVLAGYKLNGTRLNKS
+RADELVEKSLRGANLWNEVKDRLDKPGSGLSGGQQQRLCIARSIAVQPDVILMDEPCSAL
+DPISTLAVEDLINELKEEYTVIIVTHNMQQAARVADKTAFFNIQGVGKPGKLIEYDDTNV
+IFNNPSSQQTEDYVSGRFG
+>2_265
+MSKRIQAKDVDVYYGKFKAVEGVNIDIAPRTVTAFIGPSGCGKTTFLRAINRMHEVLPGA
+HVEGQLLLDGEDVYGPGVDPVTVRSQIGMVFQRPNPFPTMSIRDNVLAGYKLNGTRLSRS
+RADEIVEKSLRGANLWNEVKDRLDKPGSGLSGGQQQRLCIARSVAVSPDVILMDEPCSAL
+DPISTLAVEDLINELKEQYTVIIVTHNMQQAARVADKTAFFNIQGIGQPGKLIEFDDTNV
+IFNNPSNQQTEDYVSGRFG
+>3_207
+MSKRIQAKDVDVYYGKFKAVEGVSIDIAPRTVTAFIGPSGCGKTTFLRAINRMHEVLPGA
+HVEGQLLLDGEDVYGPGVDPVTVRSQIGMVFQRPNPFPTMSIRDNVLAGYKLNGTRLTKS
+RADEIVEKSLRGANLWNEVKDRLDKPGSGLSGGQQQRLCIARSVAVEPDVILMDEPCSAL
+DPISTLAVEDLINELKEDYTVIIVTHNMQQAARVADKTAFFNIQGIGQPGKLIEYAETNT
+IFNNPSNQQTEDYVSGRFG
+>4_101
+MSKRIQAVDVDVFYGKFKAVEGVNIDIAPRSVTAFIGPSGCGKTTFLRSINRMHEVLPGA
+TVDGQLLLDGEDIYGPGVDPVRVRSQIGMVFQRPNPFPTMSIRDNVLAGYKLNGTRLNKS
+RADELVEKSLRGANLWNEVKDRLDKPGSGLSGGQQQRLCIARSIAVQPDVILMDEPCSAL
+DPISTLAVEDLINELKEEYTVIIVTHNMQQAARVADKTAFFNIQGVGKPGKLIEYDDTDV
+IFNNPSSQQTEDYVSGRFG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000254.fa

@@ -0,0 +1,35 @@
+>0_107
+MTAGLAVVLVLLCAVGALMGFRDAPNAAALPVRYRALTPRGALLLTGAVNTVGALLGIGL
+ITLSVHYFTSPAVRSEIGPLAVGVSCAVTLVWGLLLWWRRLPGSSTHALISALAGSHLAV
+RLSLHIDVAHTIFDLVRAEVLLSLLLSPLIAWALARLLTAPAMRLATRGTTVNVQHRARV
+ALGISASAMAMGHGLQAGQRMGVLWAAVLVGSGSVLAPDALTAEFVGGAFLFALAVGLGT
+LGGAWRIAWTLTERLVRLDPLRASVAAVIPAGLLFVGSLVFHLPLSSTHTATAAIVGAGQ
+TQTYASVRWPTVLRVVGWWLLTPVACALLGLLGTLALLPLA
+>1_2071
+MTAGLAVVLVLLCAVGALMGFRDAPNAAALPVRYRALTPRGALLLTGAVNTVGALLGIGL
+ITLSVHYFTSPAVRSEIGPLAVGVSCAVTLVWGLLLWWRRLPGSSTHALISALAGSHLAV
+RLRLHIDVAHTIFDLVRAEVLLSLLLSPLIAWALARLLTAPAMRLATRGTTVNVQHRARV
+ALGISASAMAMGHGLQAGQRMGVLWAAVLVGSGSVLAPDALTAEFVGGAFLFALAVGLGT
+LGGAWRIAWTLTERLVRLDPLRASVAAVIPAGLLFVGSLVFHLPLSSTHTATAAIVGAGQ
+TQTYASVRWPTVLRVVGWWLLTPVACALLGLLGTLALLPLA
+>2_264
+MTPGLAVVALLLCALAAMMGFRDAPNAVALPVRFRALTPRLALVMTALINAVGALLGIGL
+ITLSVHYFTSPAVRGDVGPLAVGVTAVVAVLWGLLLWWRRLPGSTTHAVLSALAGAHLAV
+QLSLHDDLAGSILESVRVEVVLSLLLSPVIAWGLARLLTGPVVQVATTGTTVNVQRRARI
+ALAVSAGAMAMGHGLQAGQRVGVLWAAVLVGSGAALSPDALTAEFVVGSVLFALAIALGT
+LGGAWRIAWTLTERLVRLDPLRASVAAVVPAGLLFVGSLVLHLPLSSTHTATAAIVGAGQ
+TQTYASVRWPTVLRVGGWWLLTPVVCAALGLLGTLALLPLA
+>3_206
+MTAPLLVPVLVLLLAVGGLMGFRDAPNAVALAVRFRALTPRVALILSALLNAVGVLLGAL
+MLTLGLPLMVAGGTARPEVLALVGVAAAVTLGWGVLAWRFRAPTSTTHALLASLAAAHVA
+SVSALGSGLDPAFENGARWEVAASLLLSPVLAWGLARLTARPVLRLATTGTTVNVQHRAR
+IALAVSTGLIALGHGVQAALRLLPLAVLVATAAVGTGLPPGTELSAAFVAAAAVGIGTLG
+GAWGIAWTLTERLVILDPLRAAVAAVVPAVLLFAGTMLLHLPLSSTHTGVAGIVGAGQTQ
+SYASVRWGAVARVAVWWVATPLVCGSLAFAAGAVLLPLLG
+>4_102
+MTAGLAVVLVLLCAVGALMGFRDAPNAAALPVRYRALTPRGALLLTGAVNTVGALLGIGL
+ITLSVHYFTSPAVRSEIGPLAVGVSCAVTLVWGLLLWWRRLPGSSTHALISALAGSHLAV
+RLSLHIDVAHTIFDLVRAEVLLSLLLSPLIAWALARLLTAPATRLATRGTTVNVQHRARV
+ALGISASAMAMGHGLQAGQRMGVLWAAVLVGSGSVLAPDALTAEFVGGAFLFALAVGLGT
+LGGAWRIAWTLTERLVRLDPLRASVAAVIPAGLLFVGSLVFHLPLSSTHTATAAIVGAGQ
+TQTYASVRWPTVLRVVGWWLLTPVACALLGLLGTLALLPLA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000264.fa

@@ -0,0 +1,35 @@
+>0_121
+MSAQTQPAATRREDAPLGVLVGVDGSDQSVSAARWAQREAGLRGEPLTLVTAYSIPAYWG
+YGADASGAVLDDSRLREGVQALLEEVAGKLDADGVRPELRVEIGDAAGVLVELSAEASLL
+VSGARGRGGFMGRLLGSVAAALPGHAHCPVAIIPAGVEASRAGDRTAVVVGVDGSEQGRA
+AALEAAEEARLRQAPLKLVCAVPPLGANAAWLAVSLDEEARERELRERLEAGAAWISSEF
+PGLEVLTELVDGTPVDVLVDQTATARLTVVGTRGLGGFAGAIVGSTSRGVADHAKGPVLV
+VPFREDVRLGRRASFGPVQDQSGS
+>1_2086
+MSAQTQPAATRREDAPLGVLVGVDGSDQSVSAARWAQREAGLRGEPLTLVTAYSIPAYWG
+YGADAGGAVLDDSRLREGVQALLEEVAGKLDADGVRPELRVEIGDAAGVLVELSAEASLL
+VSGARGRGGFMGRLLGSVAAALPGHAHCPVAIIPAGVEASRAGDRTAVVVGVDGSEQGRA
+AALEAAEEARLRQAPLKLVCAVPPLGANAAWLAVSLDEEARERELRERLDAGAAWISSEF
+PGLEVLTELVDGTPVDVLVDQSATACLTVVGTRGLGGFAGAIVGSTSRGVADHAKGPVLV
+VPFREDVRLSRRASFGPVQDQPES
+>2_246
+MSAQTQPAAPREDAPLGVLVGVDGSEQSVSAARWAQREAGLRGEPLTLVTAYSIPAYWGY
+GADAGGTVLDDSRLREGVQVLLDEVAAKLDADGVRPELRVEVGDAAGVLVDLSKAASLLV
+SGGRGRGGFIGRLLGSVASALPGHAHCPVAIIPAGVEASRAADGAAVVAGVDGSEQGRAA
+ALVAAEEARIRQAPLKLVCALPPVGGNAAWLGVTLDEAAREQELRERLDAGAAWIASEFP
+GLEVVTELVDGTPVDVMREQTATARLTVVGTRGLGGFTGALVGSTSRGVTDHAKGPVMVV
+PFRKDARLGTRTKFGPVADQD
+>3_180
+MSAETTPSTLPAEAPLGVLVGVDGSDQSISAARWAQREAGLRNLPLTLATAYTVPAFWGY
+AADGAGLLTDDGRLHAGVEALLREVAGKLDPAGVAPELRVEVGDAAGVLIDLSAQAELLV
+SGSRGRGGFIGRLLGSVSSALPGHAHCPVAIIPAGVEASRADSGAPVVVGVDGSEQGRAA
+ALVAAEEAQARKAPLHLISALPPISPNAAWLAVSLDEEAREQELRERLEDGARWLASEFP
+GLEVTSELASGVPVDVMVEQTATARLTVLGTRGLGGFSGALMGSTSAGVANHAKGPVMVV
+PFREDVRLGRRAEFGAVVDQDDPRV
+>4_129
+MSAQTQPAATRREDAPLGVLVGVDGSDQSVSAARWAQREAGLRGEPLTLVTAYSIPAYWG
+YGADAGGAVLDDSRLREGVQALLEEVAGKLDADGVRPELRVEIGDAAGVLVELSAEASLL
+VSGARGRGGFMGRLLGSVAAALPGHAHCPVAIIPAGVEASRAGDRTAVVVGVDGSEQGRA
+AALEAAEEARLRQAPLKLVCAVPPLGANAAWLAVSLDEEARERELRERLDAGAAWISSEF
+PGLEVLTELVDGTPVDVLVDQSATACLTVVGTRGLGGFAGAIVGSTSRGVADHAKGPVLV
+VPFREDVRLGRRASFGPVQDQPES

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000265.fa

@@ -0,0 +1,19 @@
+>0_122
+MDHRPSPEQPAATWMSEQEFDDAVSAALTRIPDELARLLTNVVVVVEDEYEPQRWEDPAT
+ELFGLYEGVPLTERAEFAWQMPDRIVVFRGPLTRHCTSRAELEDEITVTVMHEVGHFFGI
+SEERLHELGWG
+>1_2087
+MDHRPSPDQPAATWMSEQEFDDAVSAALARIPDELARLLTNVVVVVEDEYEPQRWEDPAT
+ELFGLYEGVPLTERAEFAWQMPDRIVVFRGPLTRHCTSRAELEDEITVTVMHEVGHFFGI
+SEERLHELGWG
+>2_245
+MSEQEFDDAVSAALTRIPDELARLLTNVVVVVEDEYEPQRWENPDTELFGLYEGVPLTER
+AEMPWQMPDRIVVFRGPLTRHCTSRAELEHEITVTVMHEVGHFFGIDEERLHELGWG
+>3_179
+METWMSEEEFDAAVDAALLRIPDELARLLTNVVVIVEDEYEPQRWEDPDTELFGVFEGFS
+LAERAEAAWQLPDRIVIFRGPLTRHCRSRAELEHEITVTVMHEVGHFFGISEERLHELGW
+G
+>4_130
+MDHRPSPEQPAATWMSEQEFDDAVSAALTRIPDELARLLTNVVVVVEDEYEPQRWEDPAT
+ELFGLYEGVPLTERAELAWQMPDRIVVFRGPLTRHCTSRAELEDEITVTVMHEVGHFFGI
+SEERLHELGWG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000271.fa

@@ -0,0 +1,33 @@
+>0_130
+MRELQQRIIAQQGVLPEIDPAAEVERRVAFLADYLAATGASGFVLGISGGVDSTVGGRLA
+QLAVERRRAQLGVTDAVALGGPDTTPPGEAGVGADVVPSRENPRFTAVRLPYKVQHDEAD
+ARAAMDFVGADQDVTLNIAEAVQGLAAAFAEAVGEPISDYNQGNVKARIRMTAQYAVAGA
+HGQLVIGTDHAAEAVTGFYTKFGDGGADVLPLAGLNKRQVRALGRELGAPEPLWNKVPTA
+DLLDGTPGQTDEAELGMTYEDIDDYLEGKDVPTEVAEKLEGIWLRSRHKRTTPVTIHDDW
+WR
+>1_2095
+MRELQQRIIAQQGVLPEIDPAAEVERRVAFLADYLAATGASGFVLGISGGVDSTVGGRLA
+QLAVERRRAQLGVPDAVALGGPGTTPPGEAGVGADVVPSRENPRFTAVRLPYKVQHDEAD
+ARAAMDFVGADQDVTLNIAEAVQGLAAAFAEAVGEPISDYNQGNVKARIRMTAQYAVAGA
+HGQLVIGTDQAAEAITGFYTKFGDGGADVLPLAGLNKRQVRALGRELGAPEPLWNKVPTA
+DLLDGTPGQTDEAELGMTYEDIDDYLEGKDVPTEVAEKLEGIWLRSRHKRTTPVTIHDDW
+WR
+>2_236
+MRELQQQIIAEQGVRPQIDPAQEIERRVEFLVDYLEATGAAGFVLGISGGVDSTVGGRLA
+QLAVERRRARLGAPDAVALGGPEAPRGAPAADEAPSPQRPQFTAVRLPYRQQKDEADARA
+AMDFVDADREITLDIAAGVEGIASAFVEATGDEIADFDKGNVKARMRMVAQYALAGAHRQ
+LVIGTDHAAEAVTGFYTKFGDGGADVLPLSGLNKRQVRALGRELGAPEHLWNKVPTADLL
+DGNPGRTDEDELGMTYEHIDDYLEGGDIPEEAAEKLEGIWLRSRHKRTMPVTVHDDWWR
+>3_170
+MPEPYAGAMRELQQQIIAEMGVRPEVDPAAEVEARVRFLVDYLEATGASGFVLGISGGVD
+STTAGRLAQLAVERRRAELGTEAGDDAAPSRENPRFTAVRLPYRVQADEADATAAMDFVG
+ADGRVTLNIAEAVAGMASAFQEATGEPISDYNQGNVKARMRMVAQYAIAGAHGQLVIGTD
+HAAESITGFFTKFGDGGADVLPLAGLDKRQVRAVAKELGAPEHLWAKVPTADLLDGSPGR
+ADEDELGLSYEHIDDYLEGREIPEEAAEKLEGVWRRSRHKRTTPVTIHDDWWR
+>4_138
+MRELQQRIIAQQGVLPEIDPAAEVERRVAFLVDYLAATGASGFVLGISGGVDSTVGGRLA
+QLAVERRRAQLGVTDAVALGGPGTTPPGEAGVGADVVPSRENPRFTAVRLPYKVQHDEAD
+ARAALDFVGADQDVTLNIAEAVQGLAAAFAEAVGEPISDYNQGNVKARIRMTAQYAVAGA
+HGQLVIGTDQAAEAITGFYTKFGDGGADVLPLAGLNKRQVRALGRELGAPEPLWNKVPTA
+DLLDGTPGQTDEAELGMTYEDIDDYLEGKDVPTEVAEKLEGIWLRSRHKRTTPVTIHDDW
+WR

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000286.fa

@@ -0,0 +1,24 @@
+>0_160
+MMVRESKKTMILDAAIQVIEEDGITAVTFDSVAAAAGITRAGIIYHFPSRDDLIAAIHQR
+LADRWERQLEIACGKPTAEATSMERLTAYILTCSTAASRAEFQMILDSQHTQHMAIWEDL
+IDRWTGRSERDEAERDQMTSLALLAADGLWVNDLIGSRPISQDHRSETAKQIIALLQNDV
+HESEAKPNG
+>1_343
+MMVRESKKTMILDAAIQVIEEDGITAVTFDSVAAAAGITRAGIIYHFPSRDDLIAAIHQR
+LADRWERQLEIACGKPTAEATPMERLTAYILTCSTAASRAEFQLILDSQHTQHKAIWEDL
+IDRWTGRSERDEAERDQMTSLALLAADGLWVNDLIGSRPISQDHRSETAKQIIALLQNDV
+HESEAKPNG
+>2_2282
+MMVRESKKTMILDAAIQVIEEDGITAVTFDSVAAAAGITRAGIIYHFPSRDDLIAAIHQR
+LADRWERQLEIACGKPTAEATPMERLTAYILTCSTAASRAEFQMILDSQHTQHKAIWEDL
+IDRWTGRSERDEAERDQMTSLALLAADGLWVNDLIGSRPISQDHRSETAKQIIALLQNDV
+HESEAKPNG
+>3_659
+MAKTTEQLLDDAIAVLRRGGVVTIDSVASEAGMSKAGVVHHFSSKEALMVGVVNRVMDLW
+EGQLAATIGEVTDPVERLRAYVDFEVLSDFDGGDLALLADVKLRDTLAAQWRERLRPWFG
+EDAPGDAGQKAALQSARLIADGAWTDQALGLLSMTGEQRALVRGIAQRLIDEGVQK
+>4_1951
+MMVRESKKTMILDAAIQVIEEDGITAVTFDSVAAAAGITRAGIIYHFPSRDDLIAAIHQR
+LADRWERQLEIACGKPTAEATPMERLTAYILTCSTAASRAEFQMILDSQDTQHKAIWEDL
+IDRWTGRSERDEAERDQMTSLALLAADGLWVNDLIGSRPISQDHRSETAKQIIALLQNDV
+HESEAKPNG

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000304.fa

@@ -0,0 +1,40 @@
+>0_195
+MTTYATLAARYADAFDSVAHGERAREAGRHLPFAALGELQAAGFGKVGVPEDAGGEGGGS
+ETVLRLLMDLAARDVNTAHVWRSHLVFIATAMDQAPARRERWLRHIVDGDWAGSALAERA
+GGAAPGRAATLASRDEGGTWVVRGQKYYATGSAFATWTAATVGIEGADLVSRRNSKRAGG
+AVREPDRAVAVVRVRQPRVGIKDDWDGFGQRLTATGSVVLDDAAAEELLEVPRQDGPVPV
+LMEATLLALQAGIGRAALTEGTQLLRQRRRTFNTGTAALPKDDPQLLEIMGQLAGRQAAA
+ELMVREIGRLLDEGQDGADGAGPAEADVVAASAEAMAAAYRAQAVVPEAVLEVCTRIFDT
+LGASATSATLRLDRHWRNARTLATHDPAAFKVRMAGDWLVNGTPPTAYTSAGEVPEGD
+>1_2141
+MTTYATLAARYADAFDSVAHGERAREAGRHLPFAALAELQAAGFGKVGVPEDAGGEGGGS
+ETVLRLLMDLAARDVNTAHVWRSHLVFIATAMDQAPARRERWLRHIVDGDWAGSALAERA
+GGAAPGRAATLASRDEGGTWVVRGQKYYATGSAFATWTAATVGIEGADLVSRRNSKRAGG
+AVREPDRAVAVVRVRQPRVGIKDDWDGFGQRLTATGSVVLDDAAAEELLEVPRQDGPVPV
+LMEATLLALQAGIGRAALTEGTQLLRQRRRTFNTGTAALPKDDPQLLEIMGQLAGRQAAA
+ELMVREIGRLLDEGQDGADGAGPAEADVVAASAEAMAAAYRAQAVVPEAVLEVCTRIFDT
+LGASATSATLRLDRHWRNARTLATHDPAAFKVRMAGDWLVNGTPPTAYTSAGEVPEGD
+>2_178
+MTSYADLAARFADAFDAVGHGERAREAGRHLPFAVQRGLQEAGFGRVSVPEVAGGDGASH
+ETALRLLMDLAARDVNTAHLWRSHLVFVATVLDQVPAAAEPWLERVVAGDWAGSALAERG
+TAAPGRAATMAERDEGGTWVVTGEKYYATGSAFATWTIATVGVDGDGLVSRRNSKRAGGV
+VREPGRAVAVVRVRQPRVRVKDDWDGFGQRLTATGSVVLDGAAAEALLEVPRREGPVPVL
+QEASLLALQVGVGRAALAEGVELLRARRRTFNTGTEALPAQDPQLLEIMGRLAGQLAAAE
+ALVRQVGGLMDEAEERGTAGDDDGAARLMEEAMVAAYRAQAVVPDAVLGVCTGIFDTLGA
+SATSAALQLDRHWRNARTLATHDPAAFKVRMAGDHLVNGTPPTAYTSAGVVDDD
+>3_133
+MTTYATLAARYADAFDSVAHGERAREAGRHLPFAALGELQAAGFGKVGVPVDAGGEGGGS
+ETVLRLLMDLAARDVNTAHVWRSHLVFIATAMDQAPARRDRWLRHIVAGDWAGSALAERA
+GGAAPGRAATLASRDEGGTWVVRGQKYYATGSAFATWTAATVGIEGADLVSRRNSKRAGG
+AVREPDRAVAVVRVRQPRVGIKDDWDGFGQRLTATGSVVLDDAAAEELLEVPRQDGPVPV
+LMEATLLALQAGIGRAALTEGTQLLRKRRRTFNTGTAALPKDDPQLLEIMGQLAGRQAAA
+ELMVREIGRLLDEGEDGADGAGLAEADVVAASAEAMAAAYRAQAVVPEAVLEVCTRIFDT
+LGASATSATLRLDRHWRNARTLATHDPAAFKVRMAGDWLVNGTPPTAYTSAGDAQD
+>4_197
+MTTYATLAARYADAFDSVAHGERAREAGRHLPFAALGELQAAGFGKVGVPVDAGGEGGGS
+ETVLRLLMDLAARDVNTAHVWRSHLVFIATAMDQAPARRERWLRHIVDGDWAGSALAERA
+GGAAPGRAATLASRDEGGTWVVRGQKYYATGSAFATWTAATVGIEGADLVSRRNSKRAGG
+AVREPDRAVAVVRVRQPRVGIKDDWDGFGQRLTATGSVVLDDAAAEELLEVPRQDGPVPV
+LMEATLLALQAGIGRAALTEGTQLLRQRRRTFNTGTAALPKDDPQLLEIMGQLAGRQAAA
+ELMVREIGRLLDEGEDGADGAGPAEADVVAASAEAMAAAYRAQAVVPEAVLEVCTRIFDT
+LGASATSATLRLDRHWRNARTLATHDPAAYKVRMAGDWLVNGTPPTAYTSAGEVPEGD

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000313.fa

@@ -0,0 +1,10 @@
+>0_207
+MDRELRTPPELEGVDWHDDAPRRPRPIVTLVAWIAILGLVLSVGAGIFSAF
+>1_2151
+MDRELRTPPELEGVDWHDDAPRRPRPIVTLVAWIAILGLVLSVGAGIFSAF
+>2_156
+MDRSNEIPPELQGLDWGEDDAPRRRRPLITLVAWLCIIGLVLGVAAGLFSIL
+>3_109
+MADLPPELEFAEFDDDPRPSAPSPWVRVLAVVVLLGLVGSLAAGLFGGI
+>4_207
+MDRELRTPPELEGVDWHDGAPRRPRPIVTLVAWIAILGLVLSVGAGIFSAF

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000326.fa

@@ -0,0 +1,40 @@
+>0_226
+MAIHPVDATLEAAKIDPDQRAERLKGVKLDGAGWKYALTRALKEFGNDGGTDLAAKLTYY
+LVLSLAPSLLAVFSILSLVLASNRGAIDDLLGELTGLVPSDYQPLVTNLVTTMSDSAGSG
+GGIIALIIGIATALWSASAYVKAFNRSANTVYGYEEGRGLVKLTLTNLLTTLILIVGIVV
+VLLSLALNRSLVDGFLQPIAGPLGMTGVVNFLSDTFLPVWAWAKWPVVVVILLVLIATLY
+YTTPNVQKPRFHLFGPGNIVALVGMVLAAVALSVYFTQFAGYSAYGAIGTVMALLFALWI
+FNIVLLLGLEVDAEVERARQLEAGLPAEARVQLPPKDVAGVEKRAEKQTAVEERGYELRA
+VHEGR
+>1_2190
+MAIHPVDATLEAAKIDPDQRAERLKGVKLDGAGWKYALTRALKEFGNDGGTDLAAKLTYY
+LVLSLAPSLLAVFSILSLVLASNRGAIDDLLGQLTGLVPSDYQALVTNLVTTMSDSAASG
+GGIIALVIGIATALWSASAYVKAFNRSANTVYGYEEGRGLVKLTLTNLLTTLILIVGIVV
+VLISLALNRSLVDGFLQPIAGPLGMTGVVNFLSDTFLPVWAWVKWPVVVLILLLLIATLY
+YTTPNVQKPRFHLFGPGNIVALVGMVLAAVALSVYFTQFAGYSAYGAIGTIMALLFALWI
+FNIVLLLGLEVDAEVERARQLEAGLPAEARVQLPPKDVAGVEKRAEKQTAVEERGYELRA
+VHEGR
+>2_127
+MAIHPVDATLQAAKIDPEERTERLQGVKLDGAGWKYALGRAFKEFGKDGGTDLAAKLTYF
+MVLSLAPSLLAVFSILSLVLASNRGAIDDLMAQMTGLVPGEYQPLVTDLVTTMSESASGG
+GGIVALVVGILTALWSASAYVKAFNRSVNTVYGYEEGRGFVKLTLSNLLTTLIMIVGIVV
+VLISLALNRSLVDGFLAPIAGPLGMTGAVNFLSDTFLPIWAWVKWPVVVVILLLLIATLY
+YTTPNVRKPSFNLFGPGNVFALVGMVLAAVGLSVYFTQFAGYSAYGAIGTIMALLFALWI
+FNIVLLLGVEIDAEVERAKQLVAGLPAEEAVRLPPKDASALEKRVEKQTALQERGYELRA
+THEDR
+>3_92
+MAIHPVDATLEAARIDPEERTRRLKGVKLDGAGWKYAFTRALKEFGNDGGTDLAAKLTYF
+MVLSLAPALLAVFSILTLVLSSNRSAVDDVVRQLTELVPADYQGVVGDVVDNLLGQAGGG
+VLALIIGILTALWSASAYVKAFSRASNQVYNYSEGRGFVKLTLTNLVTTVVMLVGIVLVL
+ISLALNRSLVDGFLAPIAGPLGMTDAVNFLSDTFLPIWAWLKWPVVVALLLVLIATLYYF
+APNVKKPSFHMFGPGNIFALVGMALAAVALYFYFTTLAGYSAYGAIGGVMALLFALWIFN
+IVLLLGLEIDTEVERAKQLTAGMPAEDAVKLPPKDVSALEKKVEKQEELEEKGYELRALH
+DDGSDSDSDEGKGVSRAPRHAAGSHGA
+>4_227
+MAIHPVDATLEAAKIDPDQRAERLKGVKLDGAGWKYALTRALKEFGNDGGTDLAAKLTYY
+LVLSLAPSLLAVFSILSLVLASNRGAIDDLLGQLTGLVPSDYQALVTNLVTTMSDSAASG
+GGIIALVIGIATALWSASAYVKAFNRSANTVYGYEEGRGLVKLTLTNLLTTLILIVGIVV
+VLISLALNRSLVDGFLQPIAGPLGMTGVVNFLSDTFLPVWAWVKWPVVVLILLVLIATLY
+YTTPNVQKPRFHLFGPGNIVALVGMVLAAVALSVYFTQFAGYSAYGAIGTIMALLFALWI
+FNIVLLLGLEVDAEVERARQLEAGLPAEARVQLPPKDVAGVEKRVEKQTTLEERGYELRA
+VHEGR

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000334.fa

@@ -0,0 +1,30 @@
+>0_239
+MDLSNQSAIVTGGASGLGHATARRLADAGAAVVVVDLPDRERETVRADAVAALGPRARFV
+TGDVTAEDTAREAVAAALEAGPLRVLVNCAGVATPGKLVGRDGPLSAEVLSRVLAINTVG
+TVAMMAQAAAAMKAQEPLGEDRGVIVNTASVAAYDGQIGQIAYSASKGAVVALTLPAARE
+LASSQIRVVTIAPGLMETPMMAGLPEAAREALSTKTPHPARLGRPEDHALLVEQIVSNPF
+LNGEVIRLDGAVRLEPR
+>1_2202
+MDLSNQSAIVTGGASGLGHATARRLADAGAAVVVVDLPDREGETVRADAVAALGPRARFV
+TGDVTAEDTAREAVAAALEAGPLRVLVNCAGVATPGKLVGRDGPLSAEVLSRVLAINTVG
+TVSMMAQAAAAMKAQEPLGEDRGVIVNTASVAAYDGQIGQIAYSASKGAVVSLTLPAARE
+LASSQIRVVTIAPGLMETPMMAGLPEAAREALSTKTPHPARLGRPEDYALLVEQIVSNPF
+LNGEVIRLDGAVRLEPR
+>2_113
+MDLSNQSAIVTGGASGLGHATARRLAEAGAAVVVVDLPDREGETLRADAVAALGPRARLV
+TGDVTAEATAEEAVAAALEAGPLRVLVNCAGVATPGKLVGRGGPLSAEVLTRVLAINTVG
+TVNFMSRAAAAMQGQEPQGEDRGVIVNTASVAAYDGQIGQIAYAASKGAVVSLTLPAARE
+LAASQIRVVTIAPGLMETPMMAGLPEAAREALATKTPHPARLGRPEDYALLVEQIVANPF
+LNGEVIRLDGAVRLEPK
+>3_81
+MARRESLDLQGASAIVTGGASGLGHATARRLAAAGAAVVVVDLPDREGESLRADAVASLG
+ERARFITGDVTAEATAEQAVAAALEAGPLRVLVNCAGVATPGKLVGRDGPLAAEALSRVL
+AINVVGTVTMMARAAAVMKDQELWGEDRGVIVNTASVAAFDGQIGQIAYSASKGAVAALT
+LPAARELAASQVRVVTIAPGLMETPMMAGLPEAAREALSTKTPHPARLGAPDDYALLVEQ
+IVSNPFLNGETIRLDGAVRLEPR
+>4_239
+MDLSNQSAIVTGGASGLGHATARRLADAGAAVVVVDLPDREGETVRADAVAALGPRARFV
+TGDVTAEDTAREAVAAALEAGPLRVLVNCAGVATPGKLVGRDGPLSAEVLSRVLAINTVG
+TVSMMAQAAAAMKAQEPLGEDRGVIVNTASVAAYDGQIGQIAYSASKGAVVALTLPAARE
+LASSQIRVVTIAPGLMETPMMAGLPEAAREALSTKTPHPARLGRPEDYALLVEQIVSNPF
+LNGEVIRLDGAVRLEPR

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000335.fa

@@ -0,0 +1,24 @@
+>0_240
+MKKPPLAQDPIREAARNWERHGWGDVARPMAAITSIMRAQQILLGRAQAALKPYGLTFAR
+YELLALLNFSRENRMRMSKASALLQVHPTSVTNAVDRLEAAGLVERTPHESDRRALVLAL
+TDEGRRVAVAATETLNAEVFGRSGFGPADVDTLIDVLGRFRAEAGDFQVDGPDAGAPATA
+EHTSS
+>1_2203
+MKKPPLAQDPIREAARNWERHGWGDVARPMAAITSIMRAQQILLGRAQAALKPYGLTFAR
+YELLALLNFSREKRMRMSKASALLQVHPTSVTNAVDRLEAAGLVERTPHESDRRALVLAL
+TDEGRRVAVAATETLNAEVFGRSGFDPADVDTLIDVLGRFRAEAGDFEADGPDAGAPATA
+EHTSS
+>2_112
+MKNAPLPQDPIREAARNWERHGWGDVARPMAAVTSIMRAQQILLGRTQAALKPFGLTFAR
+YELLALLNFSREKRMRMSKASALLQVHPTSVTNAVDRLESAGLVERTPHESDRRALVLAL
+TDEGRRVAVAATETLNEEVFGRTGFDEADVDALIDVFGRFRAGAGDFEADGADTTTERPS
+A
+>3_80
+MSTRDPLPQDPIREAARNWEHHGWGEVAAPMAAVTAIMRTQAILLARTQAVLKPFGLTFA
+RYELLALLNFSRERRQLMSKAGALLQVHPTSVTNAVDRLEAAGLVERQPHETDRRALLLA
+LTDEGRRVADAATEALNAEVFGATGFTDDDVAALNEILGRFRAGSGDFEA
+>4_240
+MKKPPLAQDPIREAARNWERHGWGDVARPMAAITSIMRAQQILLGRAQAALKPYGLTFAR
+YELLALLNFSREKRMRMSKASALLQVHPTSVTNAVDRLEAAGLVERTPHESDRRALVLAL
+TDEGRRVAVAATETLNAEVFGRSGFDPADVDTLIDVLGRFRAEAGDFEADGPDAGAPATA
+EHTSS

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000337.fa

@@ -0,0 +1,90 @@
+>0_246
+MTSPQTTESTTALPHERVEPKDTASAPFVARHIGPRPADVEHMLQTLGYDSLEALVDTAV
+PAGIRQPKPLELPAPLTESAVLEQLREIAGRNVMKTQMIGQGFSDTVTPGVILRKVLENP
+AWYTAYTPYQPEISQGRLEALLNYQTMVQDLTGLDIANASLLDEASAAAEAVLLMHRANR
+RRTDGVTLLDADLFPQTLSVVRLRAEAVGIDVRVADLSAGIPEDVRAEVEEKGLCGVVLQ
+QPGDSGRIHDHAAVIAQAKEAGALVTVAADILSLALITPPGEQGADIAVGSTQRFGVPLF
+FGGPHAAYMAVKEGLQRSMPGRLVGVSHDDAGKPAYRLALQTREQHIRREKATSNICTAQ
+ALLAIVASMYAVYHGPQGIARIARHAHAQAVRLAEALRAGGVEVAEEHFFDTITVRVPGR
+AEQVLQAAEENGVNLRLVDADTLRIAADETTVDADLVAVLTAFGLDAGSLPASAHEGAVA
+TPAVPESLRRSSAFMMHPVFNTHHSETKMLRYLRRLSGYDLALDRTMIPLGSCTMKLNAT
+AEMEAISWPEFCSIHPFAPDHQTEGWRFLIADLEAKLAEITGYAGVSVAPNAGSQGEFAG
+LWAIRQYHLARGEGERDICLIPASAHGTNAASAVLAGLKVVVVATADDGTIDAADLDAKI
+AANEGRIAAIMITYPSTHGVYDADVKEVCATVHAAGGQVYIDGANLNALVGLAQPGEFGG
+DVSHLNLHKTFCIPHGGGGPGVGPVAVGEHLVPYLPSREALMTAAPHGSAGVLPISWAYI
+HLMGAEGLRSATAHALLGANYISRRLAPLYPTLYTGNDGLVAHECILDLRELTARTGVTA
+EDVCKRLIDYGFHAPTLAFPVAGTLMVEPTESEDLEEIERFIEAMEAIHAEITAVTPETV
+ADSVLRRAPHTLNVLMADEWDRPYSRAQAGTPVPSLRLDKYLPPVGRIDGAYGDRNLVCS
+CPPPEAFEGAVADTADED
+>1_2211
+MTSPQTTESTTALPHERVEPKDTASAPFVARHIGPRPADVEHMLQTLGYDSLEALVDTAV
+PAGIRQPKPLELPAPLTESAVLEQLREIAGRNVMKTQMIGQGFSDTVTPGVILRKVLENP
+AWYTAYTPYQPEISQGRLEALLNYQTMVQDLTGLDIANASLLDEASAAAEAVLLMHRANR
+RRTDGVTLLDADLFPQTLSVVRLRAEAVGIDVRVADLSAGIPEDVRAEVEEKGLCGVVLQ
+QPGDSGRIHDHAAVIAQAKEAGALVTVAADILSLALITPPGEQGADIAVGSTQRFGVPLF
+FGGPHAAYMAVKEGLQRSMPGRLVGVSHDDAGKPAYRLALQTREQHIRREKATSNICTAQ
+ALLAIVASMYAVYHGPQGIARIARHAHAQAVRLAEALRAGGVEVAEEHFFDTITVRVPGR
+AEQVLQAAEENGVNLRLVDADTLRIAADETTVDADLVAVLTAFGLDAGSLPASAHEGAVA
+TPAVPESLRRSSAFMTHPVFNTHHSETKMLRYLRRLSGYDLALDRTMIPLGSCTMKLNAT
+AEMEAISWPEFCSIHPFAPDHQTEGWRFLIADLEAKLAEITGYAGVSVAPNAGSQGEFAG
+LWAIRQYHLARGEGERDICLIPASAHGTNAASAVLAGLKVVVVATADDGTIDAADLDAKI
+AANEGRIAAIMITYPSTHGVYDADVKEVCATVHAAGGQVYIDGANLNALVGLAQPGEFGG
+DVSHLNLHKTFCIPHGGGGPGVGPVAVGEHLVPYLPSREALMTAAPHGSAGVLPISWAYI
+HLMGAEGLRSATAHALLGANYISRRLAPLYPTLYTGNDGLVAHECILDLRELTARTGVTA
+EDVCKRLIDYGFHAPTLAFPVAGTLMVEPTESEDLEEIERFIEAMEAIHAEITAVTPETV
+ADSVLRRAPHTLNVLMADEWDRPYSRAQAGTPVPSLRLDKYLPPVGRIDGAYGDRNLVCS
+CPPPEAFEDAVADTADED
+>2_105
+MTSPQTTESTTALPHERVEPKDTASAPFVARHIGPRPADVEHMLQTLGYDSLEALVDTAV
+PAGIRQPKPLELPAPLTESAVLEQLREIAGRNVMKTQMIGQGFSDTVTPGVILRKVLENP
+AWYTAYTPYQPEISQGRLEALLNYQTMVQDLTGLDIANASLLDEASAAAEAVLLMHRANR
+RRTDGVTLLDADLFPQTLSVVRLRAEAVGIDVRVADLSAGIPEDVRAEVEEKGLCGVVLQ
+QPGDSGRIHDHAAVIAQAKEAGALVTVAADILSLALITPPGEQGADIAVGSTQRFGVPLF
+FGGPHAAYMAVKEGLQRSMPGRLVGVSHDDAGKPAYRLALQTREQHIRREKATSNICTAQ
+ALLAIVASMYAVYHGPQGIARIARHAHAQAVRLAEALRAGGVEVAEEHFFDTLTVRVPGR
+AEQVLQAAEENGVNLRLVDADTLRIAADETTVDADLVAVLTAFGLDAGALPASAHEGAVA
+TPAVPEALRRSSAFMTHPVFNTHHSETQMLRYLRRLSGYDLALDRTMIPLGSCTMKLNAT
+AEMEAISWPEFCSIHPFAPDHQTEGWRFLIADLEAKLAEITGYAGVSVAPNAGSQGEFAG
+LWAIRQYHLARGEGERDICLIPASAHGTNAASAVLAGLKVVVVATADDGTIDAADLDAKI
+AANEGRIAAIMITYPSTHGVYDADVKEVCATVHAAGGQVYIDGANLNALVGLAQPGGFGG
+DVSHLNLHKTFCIPHGGGGPGVGPVAVGEHLVPYLPSREALMTAAPHGSAGVLPISWAYI
+HLMGAEGLRSATEHALLGANYISRRLAPLYPTLYTGNDGLVAHECILDLRELTARTGVTA
+EDVCKRLIDYGFHAPTLAFPVAGTLMVEPTESEDLQEIERFIEAMEAIHAEITAVTPETV
+ADSVLRRAPHTLNVLMADEWDRPYSRAQAGTPVPSLRLDKYLPPVGRIDGAYGDRNLVCS
+CPPPEAFEDAVADTADED
+>3_73
+MTSPLTPTEPRDTASAPFVARHIGPRGEDVRHMLQTLGLGSVDELVDTAVPSVIRQSAPL
+DLPAPLTEAAALEQLREIAGRNVVKTQMIGQGFYDTVTPGVILRKVLENPAWYTAYTPYQ
+PEISQGRLEALLNYQQMVEDLTALPIANASLLDEASAAAEAVLLMHRANRKKADGITLLD
+ADLFPQTLTVAQMRAEAVGLEVRVADLSAGIPEDVRAEVEEKGLCGVVLQQPGDSGRLHD
+HSAVIAQAKEAGALITVAADILSLALITPPGEQGADIAIGSTQRFGVPLFFGGPHAAYLA
+VREGLQRSMPGRLVGVSHDDAGKPAYRLALQTREQHIRREKATSNICTAQALLAITASMY
+AVYHGPAGITAIARHAHAQAHRLAIALAGAGVEVAHAEYFDTLTLNVPGRAEEVVRAAEE
+AGVNLRLVDADIVRVACDETTVDEDLAAVLTAFGADPASLPAAPHEGAVQTPAVPEAQRR
+TSAFMTHPVFNTHRSETQMLRYITRLANRDLALDRTMIPLGSCTMKLNATTEMEAISWPE
+FCAIHPFAPDHQTEGWRFLISDLEERLAEITGYAGVSVAPNAGSQGEFAGLWAIRQYHLA
+HGDGERDVCLIPASAHGTNAASAVLAGLRVVVVATADDGTIDSADLDAKIAAHEGRVAAI
+MITYPSTHGVFDGDVTEVCDKVHAAGGQVYIDGANLNALVGLARPGAFGGDVSHLNLHKT
+FCIPHGGGGPGVGPVAVGEHLVPFLPSAERLVTAAPHGSAGVLPISWAYIAMMGGEGLKD
+ATEQALLNANYISRRLADHYPTLYTGEGGLVAHECILDLRELTAQTGVTAEDVCKRLIDY
+GFHAPTLAFPVAGTLMVEPTESEDLAELDRFIDAMISIHAEITATTPETVEQSVLRRAPH
+TLGATTGEDWDRPYTRAQALYPLPSLVDDKYLPPVGRIDGAYGDRNLVCSCPPPEAFEEA
+AASPESTEPVSAADTASTSH
+>4_245
+MTSPQTTESTTALPHERVEPKDTASAPFVARHIGPRPADVEHMLQTLGYDSLEALVDTAV
+PAGIRQPKPLELPAPLTESAVLEQLREIAGRNVMKTQMIGQGFSDTVTPGVILRKVLENP
+AWYTAYTPYQPEISQGRLEALLNYQTMVQDLTGLDIANASLLDEASAAAEAVLLMHRANR
+RRTDGVTLLDADLFPQTLSVVRLRAEAVGIDVRVADLSAGIPQDVRAEVEEKGLCGVVLQ
+QPGDSGRIHDHAAVIAQAKEAGALVTVAADILSLALITPPGEQGADIAVGSTQRFGVPLF
+FGGPHAAYMAVKEGLQRSMPGRLVGVSHDDAGKPAYRLALQTREQHIRREKATSNICTAQ
+ALLAIVASMYAVYHGPQGIARIARHAHAQAVRLAEALRAGGVEVAEEHFFDTITVRVPGR
+AEQVLKAAEENGVNLRLVDADTLRIAADETTVDADLVAVLTAFGLDAGSLPASAHEGAVA
+TPAVPEALRRSSAFMTHPVFNTHHSETKMLRYLRRLSGYDLALDRTMIPLGSCTMKLNAT
+AEMEAISWPEFCSIHPFAPDHQTEGWRFLIEDLEAKLAEITGYAGVSVAPNAGSQGEFAG
+LWAIRQYHLARGEGERDICLIPASAHGTNAASAVLAGLKVVVVATADDGTIDAADLDAKI
+AANEGRIAAIMITYPSTHGVYDADVKEVCATVHAAGGQVYIDGANLNALVGLAQPGEFGG
+DVSHLNLHKTFCIPHGGGGPGVGPVAVGEHLVPYLPSREALMTAAPHGSAGVLPISWAYI
+HLMGAEGLRSATAHALLGANYISRRLAPLYPTLYTGNDGLVAHECILDLRELTARTGVTA
+EDVCKRLIDYGFHAPTLAFPVAGTLMVEPTESEDLEEIERFIEAMEAIHAEITAVTPETV
+ADSVLRRAPHTLNVLMADEWDRPYSRAQAGTPVPSLRLDKYLPPVGRIDGAYGDRNLVCS
+CPPPEAFEGAVADTADED

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000348.fa

@@ -0,0 +1,30 @@
+>0_260
+MVAPPPHHDAAPSPVFPVAAGLQAGLTASQLRGPRFDAPHHGLRHTAGGQPSLADVVRAL
+QRTNPGTAATHATAARLWGMWLPRQWERGPIHLARTRAEGGAPRRSGVVGHELHPQDPVL
+VRARVRITTPAATWAALAQLGLPLADVVAAGDSLLQRADGPAGRRRPGDHPRCTVRDLEA
+EVLRVRGRRGTRTLRAALPLLRDGADSRAETLLRLALADAGVPEPEVNPLLMLSDGSTVR
+PDLVWREAHVCVQYEGDHHRTDPRQWRRDIERDRRMQAEGWIVLRVTASVFTRRGLDALL
+RDLAAHLRLPLPA
+>1_2224
+MVAPPPHHDAAPSPVFSVAAGLQAGLTASQLRGPRFDAPHHGLRHTAGGQPSLADVVRAL
+QRTNPGTAATHATAARLWGMWLPRQWERGPIHLARTRAEGGAPRRSGVVGHELHPQDPVL
+VRARVRITTPAATWAALAQLGLPLADVVAAGDSLLQRADGPAGRRRPGDHPRCTVRDLEA
+EVLRVRGRRGTRTLRAALPLLRDGADSRAETLLRLALTDAGVPGPEVNPLLLLSDGSTVR
+PDLVWREAHVCVQYEGDHHRTDPRQWRRDIERDRRMQAEGWIVLRVTASVFTRRGLDALL
+RDLAAHLRLPLPA
+>2_426
+MWLPAEAEQRVHLSRVRPGAQPRIAGVAGHRIRIDPVTGLTVLGVGDKAYTVTTPERTWT
+DLASMGLTREDLIVAGDALLHRRDGPGGEVAAGRQHPLSSLADLGVAVAEARGVTGWRLL
+GEALPHLRERSDSPQETRLRVRLVGAGFPEPQVNPEVPLVWDAWGRILRSTPVDLYFAAA
+KVALQFEGEHHFSRARQYRRDMRRDEELRDVGVETVRVDSAVFGAGEWARFMARLQRLLT
+TRGGA
+>3_380
+MDGPRDLVWREARVAIEYEGAHHFEDADQYRRDMRRDEELRALGWVVLRVDRDVWTPQGW
+EVFLGRLGAALARWSC
+>4_258
+MVAPPPHHDAAPSPVFPVAAGLQAGLTASQLRGPRFDAPHHGLRHTAGGQPSLADVVRAL
+QRTNPGTAATHATAARLWGMWLPRQWERGPIHLARTRAEGGAPRRSGVVGHELHPQDPVL
+VRARVRITTPAATWAALAQLGLPLADVVAAGDSLLQRADGPAGRRRPGDHPRCTVRDLEA
+EVLRVRGRRGTRTLRAALPLLRDGADSRAETLLRLALADAGVPEPEVNPLLMLSDGSTVR
+PDLVWREAHVCVQYEGDHHRTDPRQWRRDIERDRRMQAEGWIVLRVTASVFTRRGLDALL
+RDLAAHLRLPLPA

Biomni/experiments/bioagent_bench/runs/scale_3000/comparative-genomics_20260520_141735/orthofinder_results/Results_May20/WorkingDirectory/Sequences_ids/OG0000352.fa

@@ -0,0 +1,20 @@
+>0_269
+MSVRTPDPNPGWLSDEDLYEARRRLPMVYVEAIPVRLDSLGYVTEIGLLYVADETGTFQR
+TFVSGRVQYRETIRAALMRHLEKDLGPLAFPQLPPSVVPCTVAEYFPAPSETGLTDDRQH
+AVALVYVVPVTGECQPRQNALELTWLTPEEALGEDIQAEFIGGRGDLVRQALAHVGWGR
+>1_2235
+MSVRTPDPNPGWLSDEDLYEARRRLPMVYVEAIPVRLDSLGYVTEIGLLYVADETGTFQR
+TFVSGRVQYRETIRAALMRHLEKDLGPLAFPQLPPSVVPCTVAEYFPAPSETGLTDDRQH
+AVALVYVVPVTGECQPRQNALELTWLTPEEALGEDIQAEFIGGRGDLVRQALAHVGWGR
+>2_66
+MSVRTPDPNPGWLSDEDLYEARRRLPMVYVEAIPVRLDSLGYVTEIGLLYVADETGTFQR
+TFVSGRVQYRETIRAALMRHLEKDLGPLAFPQLPPSVVPCTVAEYFPAPSETGLTDDRQH
+AVALVYVVPVTGECQPRQNALELTWLTPEEALGQDIQAEFIGGRGDLVRQALAHVGWGR
+>3_51
+MSVRTPDPNPGWLNEEDLYEARRRLPMVYVEAIPVRVDALGYVSEIGLLYVADEEGQFQR
+TFVSGRVMYRETIRGALMRHLEKDLGPLAFPQLPPSLVPCAVAEYFPAPSETGLTDDRQH
+AVSLVYVVPVSGECSPRQDALELTWLTPQEALGEDVQAEFIGGRGNLVRQALAHVGWGR
+>4_268
+MSVRTPDPNPGWLSDEDLYEARRRLPMVYVEAIPVRLDSLGYVTEIGLLYVADETGTFQR
+TFVSGRVQYRETIRAALMRHLEKDLGPLAFPQLPPSVVPCTVAEYFPAPSETGLTDDRQH
+AVALVYVVPVTGECQPRQNALELTWLTPEEALGEDIQAEFIGGRGDLVRQALAHVGWGR