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["Table S1.6.3 Endosymbiotic gene transfer candidates"]
["Phylogenetic tree ID"," P. pemaquidensis query protein ID","Sequence","P. pemaquidensis scaffold","Predicted direction of gene transfer","Putative function","Gene expressed? (RNA-seq)","targetP (Reliability class)","Predotar","iPSORT","MT carrier signatures?","TargetP","SignalP4.1","SignalP3.0","Predotar","PredSL","WoLF PSORT","PSORTII","TMHMM"]
["8307 (Fig. S1.6.1a)","NPAc7281A","MASSPVGIDPFITELWDSSIIPTLCEYIKIPNLSPDFDADCLTNGHMEAAFALIKTWVEEHLPVGAKVVLHEEPGKRTPFLHVDIAPFKGGKGHSLLYQHLDKQPWMRPWADGLDPTTPVIRGDKLYGRGGADDGYGIFASITAILDVQRRGLPHGHLSVVVEGAEESCRPCVPALVEHKGVPNPEPDLEYWIEKLKPQFGPIDLVICLDSGAATYDTMWLTDALRGVGAVKVEVEVGKESIHSGLGGGVVPDPVRILRILLERIEDTATGAMKVKALNVDIPDSVIKNLAPFKEIPNKQHMQQFTFLDGAHPGSTDNVELMLKSTWKPSVTVIGFDGCPSCAEGGNVIRPSSAMKLSVRIPPMADPMAAEKELKEILEADPPYGCKVTVTTDGFCAGWKAPTLSPWLEKSLHRASNTAFGKPFGAFGCGGSIPFMGMLHDMFKEANFCITGVLGPESNAHGPNEFLHIPFAKGITSCISTVLEDHQNQE*\n","scaffold2993","Endosymbiont to host","Peptidase M20 protein","Yes","-","-","-","-","-","-","- / -","-","-","cyto/cysk","cytoplasmic","-"]
["4149 (Fig. S1.6.1b)","NPAc3631A","MGDKKGNQFVRDLCLGGAIGAVSKTVMSPVERVKILMQTMDSNPAVISGEVKPYASIADCFKRVGAEQGVAAFWRGNFVNCLRYAPQQGSALAFNDFFKSVFPKKDKDTEFMMYFFNNLMAGGMGGATAMVICYPMDFARTRLASDLQAGKGQFNGIWDCLSKTVKQQGLAGLYRGTAVSIAGAFVYRAGQLGLYGTIMGLNPYAKDKGVLGFCSAVVIATAARTAVLPFNYPFDTVRRRLMLESEKAPADRMYKNGIHCAGQVMKNEGFAGMYKGLFPEIFRGFGGVMVIVLYERIKNYLN*\n","scaffold769","Endosymbiont to host","Mitochondrial ADP/ATP translocase","Yes","-","-","-","Yes","-","-","- / -","-","-","cyto ","cytoplasmic",2]
["7855 (Fig. S1.6.1c)","NPAc6887A / NPAc7727A (duplicate genes)","MATKYDAPYFGKAALGGGICCSVTHAIVCPVDVVKTRMQLNPAKYNAGMMHAAKMVVAEGGVGALSLGLGPTVAGYFVQGCFKFGGFEFFKINAAQMMGEEAAWKYRTGICLGAGACAEFIADIFLSPLEATRIRLVSDPQYAPGLISAFPKIIREDGVLKGFYSGFAPICSKQVPYTMTKFAVQGKAAEAIRAATGLKEETMSEGKKMAVALSSGTIAGVAAAIASHPADTLLSKINKSPTAGGTGSVISRLVNLAKETGFKNLCLTGLGARCIMIGALSAGQFGIFDIVMAVTGAKKFHFTAPTKE*\n","scaffold2510 / scaffold3356","Endosymbiont to host","Mitochondrial carrier protein","Yes / Yes","- / -","- / -","- / -","Yes / Yes","-","-","- / +","-","secreted","plas","ER",2]
[null,null,"MVTKYDSTYYIKAAVAGGLCCSVTHGAVCPVDVVKTRMQLNPAKYNAGMVHAAKMVVAEGGVGALSLGLGPTVAGYFVQGWFKFGGVEFFKINSAQMMGEESAWKYRTGIYLGSAACAEFIADIFLCPLEATRIRLVSNPEYAPGLISAFPKIIREDGVLKGFYSGFGPILFKQVPYTMAKFAVQGKAAEAIRAATGLKEETMSEGKKMAVALSSGTIAGVAAAIISHPADTLLSKINKSPTAGGTGSIISRLGNLAKETGFKNLCLTGLGARCIMIGSLTAGQFGIFDIVMSMTGAKKFHFTAPSEE*\n",{"$nulls":8},"-","-","- / +","-","secreted","ER_mito","cytoplasmic",1]
["8442 (Fig. S1.6.1d)","NPAc7401A","MAEKQRDDLLIFYGSHTGTARSYARMLGTYALSHGFEPVVCCMNDGIALLKELESDKKKIPRAVLFVVSTWGFGEFPTNAIAFSKELKSGSLPVLASIPFAVLGLGNSLSEKYNVAAKTLDAGLLAMGAKSFLPLSLSCDQQPNGHDDKFRAWKADIWAALGCSTMGALSSTYDLRPSSTDNAKKTKHNPGGGFEWCQLEANELLTPKSYIPISSLATVTIPLETQKKMLGGRHATSSTCLLEIIPFPSDTLVNRALARLKVSGDDAFTIVPLSKNPTHIDYTTLFAKDILRELIDISSIPTRSFLDALASIATEADDKKKLLTLADDLGAQSEYAKLTRGVFSIVDLLEMFPTLSISLDQLLTHAPHNHQRTFSIANSIEESAPTSKIQICYSVPHRTAEGGRTHDGLCSGMLANANKGDEILVRLVEEASMSRPKNASPVVFIALGTGIGSIRANLQQRQAAKNRGEPVGPTKLFYGFRNTGKSDLFRAEIEKFEAAGITSCHFVGSLDQEKFRTPMDEMDESIVEFLGEEGEILYCGLGGSVPVVVEGHLLRCGVNVTNFRLSGRFHTEYFTPDEDVENLLHPDLKTVDANTLAARVGESDMFCFQCQQTFKNVGCTTVGVCGKTPDVSALQDLTLHSLKILGFYLHELRTMDCADMPKLNHLTLEALFHTVTNVNFDDSRFVKLIGQIKSAVAKARLAYNKACKAKGITPVKKEAIIAPEEEGAFMDIESLLEQGKDVGVLSRFVNPDTQSAACVSEMLVYGLKGLAAYSAHALMNGVEDGNIYEFIQRALHFMSGPECFDLGKSLGMCLEAGKINYTVMSMLHNSHRSLGVPTITTIPNTPTAGKCILVSGHDLIILKALLEKTEPLGINVYTHGEMLPAHSYPILHAFKTLHGHFGGAWMRQSTEFQHFPGPVLMTTNCLTEPHEAYAARLFTAGAVGWKKVPHIGNDMTDIKFDSLIAAAQEAPGFAESDSQYSYADPIGCPRPKDYTVGFGHDTVLSVAPTIIEEIGKGNITRFFLIGGCDGYSGQRSYYTELVSLLPKTCVVLTLGCGKFRFNHLDIGTIGETGIPRILDMGQCNDAFSAVQVALALADVLKCKVADLPLTIVLSWFEQKAIAVLFSCLHLGLKPIYVGPSLPAFLTPEVAGVLVKDFGIRPLGDPAEDLEVMLKSKGMGWEAPPPEQ","scaffold3069","Endosymbiont to host","Hybrid cluster protein (hydroxylamine reductase)","Yes","-","-","-","-","-","-","- / -","-","-","cyto ","cytoplasmic","-"]
["10509 (Fig. S1.6.1e)","NPAc9246Abruce_1","YVEGYNYLDTGKKVMSLSRGKTFFTFACQSGKTLSERELDHVDSIVNLSGFRDELADNGIESVNIRNREEAALYTVAIVKNAYMLPHTKLEDFTPELLCSQEYLHGCMPGPPKIWKEVPDNTHFRITKTIIPWVFNMTIQFKVSVLDPKTFAFL*\n","scaffold7608","Endosymbiont to host","Mitochondrial aspartate aminotransferase","Yes","-","n/d (no initiator M)","-","-","no Met","no Met","no Met","no Met","no Met","no Met","no Met","no Met"]
["2330 (Fig. S1.6.1f)","NPAc2055A","MTEQQPCLRPFSHRGLSFKNRLGLSPLTRGRAGAGHSDVFGEVGLAPSPISLTGEVTAANHEKKPHQTPIEMTQDDINTTIADYKAAARNAIAAGFDGVQIHSANGYLIDTFLQSCSNKRQDKYGGTLEKRLQFLKEVLEAVVSEVGPERTWIRFSPNGSFQEMGGEDNLETFDAAIQLAASFKIGCVEVMDGVAFGFHQKTEVYTLERVRKNVLKGNSDPENPTAVMGNCGHDQKSANKEIGEGNADLISIGRPYISNPDLPERFRDGIELAPIAEYGDWWTAEGASGYTSFPRAT*\n","scaffold330","Unclear","Alkene reductase-like protein (weak)","Yes","Mitochondrial (3)","-","Mitochondrial","-","M (3)","-","- / -","-","-","mito","cytoplasmic","-"]
["11325 (Fig. S1.6.1g)","NPAc9974A","MHGHLLRQTSTQSLGKPGATRYYWDPPGWHRVSARAFVIHHCCGIPASVAAKKQKLSPQSARMRAVRAINLIALLLRAGDVHPNPGPSLHVAQFNVLGFSPGKKISLLHKAKMLALDVVLLQELHVTEDEASRLAIPGFHCFA\n","scaffold7813","Unclear","Retrotransposon hotspot-like protein (weak)","Yes","Mitochondrial (3)","-","-","-","M (3)","-","- / -","-","-","mito","mitochondrial","-"]
["11133 (Fig. S1.6.1h)","NPAc9801A","MRLVHMNNQKSREHAHTCRKARAIFKLRYKKKSVEWDNMFDRPSASLREYESREKQFRRLAANSIRTANSIRKICLSENHFSGTIDLGNLEPVSIDLYRTVPEEYIPSSFTGLPLARTRLWGAIYWRFWFMNALSDTIQLADLPGKMEVLSLAKNKLVGSLDLNRLPAADTSPWWVGPVPQFWGKPRTFSNPSSSFCHGADPIDGHRKVVGQDQYPALGEVRETAKLLPRGQSPWWRDE\n","scaffold7316","Unclear","No significant annotation","Yes","Mitochondrial (4)","-","-","-","M (4)","-","- / -","-","-","nucl","nuclear/mitochondrial","-"]