core_seqid	core_source	core_type	core_start	core_end	core_bax_acc	core_contig_acc	core_bax_acc|contig_acc	core_bax_acc_contig_acc	cenote_input_name	cenote_contig	cenote_phage_region_id	cenote_gene_start	cenote_gene_stop	cenote_gene_name	original_cenote_gene_name	cenote_gene_orient	cenote_contig_length	cenote_dtr_seq	cenote_evidence_accession	cenote_evidence_description	cenote_translation	cenote_Evidence_source	cenote_vscore_category	cenote_chunk_name	cenote_chunk_length	cenote_chunk_start	cenote_chunk_stop	UNI_lookup_ID	pangenome_partition	pangenome_method	pangenome_confidence	pangenome_overlap_length	pangenome_overlap_fraction	pangenome_matching_locus_tag
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	53458	53889	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	1	432	GCA_003048705_1_43_47	GCA_003048705_1_43_47	+	120897	.	COG1610	Uncharacterized conserved protein YqeY [Function unknown]. 	MSIREQILADIKEAMKAKDEFKRDTLRTLNAALKQVEVDQRIEMTDEVVLPLLQKEIKKRADSVELYLKGAREDLAKKEQSEIELIKAYLPAQLSDDELKEKIKSIIEKVGKNLGAVMKMAKDEIGASAEAKRISMIAKELLG*	mmseqs_cdd	nonviral_gene	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0001	persistent	direct	high	431	0.998	GCA_003048705.1_01657
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	54308	55180	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	851	1723	GCA_003048705_1_43_48	GCA_003048705_1_43_48	-	120897	.	PDB:1Z19_B	Integrase	MCLNDLFDNYISYYELILSPSTLRSDIATYNKHFKNSLGLRDIKEINFIDIQKFCNDLIKQDYKIKTIKNIVAKLKVIFKLGIKLELINKNPCDFIELPKFDNKRYFDYSIAIQKRFIKAICENTDDNSDIFFFLLHGRRKNEVLSLKFSDINFKTRTYTIPFKINKAKRDMIYKMSDELYTRLYKRYIVAKEQKRLNDYVFINPMTDDKFKDLRKSWASLLKRNNLPKIRLHDIRHLIGTYSINYLKIPIEQVSFTLGHTNIITTQKYITANVKKSQETIEILLNSISV*	common_virus_hmm	common_virus	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0002	shell	direct	high	872	0.999	GCA_003048705.1_01660
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	55183	56523	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	1726	3066	GCA_003048705_1_43_49	GCA_003048705_1_43_49	-	120897	.	PFAM:PF05840.12	nicking-at-origin-of-replication	MRAKNLYGVSPFDVELCQEKLDSQREYMRSFSFVNSLGQVKNLLDISMSANFSPKYYAEVSNRVNVFSSFAIDNFQVPVFLTITLNGCFRGALSGDYSKFKPIDYKYLPNEVKYKAKNAVALSISDLVAVLNYQWHLFIMRYSRRFKKIDRSYIRCFEPHKKDGVPHIHALFYVPAYTLDFMKRIYTNIFYAPQNLKTNAITSEQEKNGELNGFQTSINNPSGYVMKYIQKTFINLKETQDFDELSAWYVKHKVRRFLSSRTKVPLWVYRKINFISSMQDFYHLNDLTNDHRALIEWNKKDDYIYINLPFNKEEIIYLNGRLEHYIGGRLMNFYDRLKINNKVDEDASDDIKNFGSTLKQRQILKICDELFKTEKRVKPVSKMRDYELLNYYQSLGGDVNVQHLAYVENLMFDRNLDNFTRYHEKHDLNAPDIDSFVDRFLICNEF*	phrogs_hmm	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0003	shell	direct	high	1340	0.999	GCA_003048705.1_01661
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	56755	57897	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	3298	4440	GCA_003048705_1_43_50	GCA_003048705_1_43_50	-	120897	.	PDB:5WQ8_J	Type-II-secretion-system-protein	MKSLIKFLILPCLLLNSLFSAEIYTDLLDFARLTSKANNIAIVTDESIHQGEYYFIYQDEVKITISMFRKMLEAKNLYLYKKDNFYYVSSQKLPDYDLRRIDLKNYVVEDVNKILSQFDLNATYATASNSVFFRADDYIFDQVKYAIAKIDKSLEQVTFKLTITETNLKDIKDLGTNLQGLLKPLNHGDLAYYINLITSPYITNSNVIKNDDSAFFGILNFLDTNGITKIISSPVLTAKNHTEVYFSSVQNIPYLVSKTDISNVNYQKTDSYEYKDIGLKINLKPIILSDHIDFDLHLILEDILSQSSSLTPIVSKKELKSSYSLKRGDVLVLSGINKKTIAKQRNGVPILKDIWLLKYLFSVEQDSEINSVLTLTIQIL*	common_virus_hmm	common_virus	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0004	shell	direct	high	1142	0.999	GCA_003048705.1_01662
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	57848	58972	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	4391	5515	GCA_003048705_1_43_51	GCA_003048705_1_43_51	-	120897	.	PFAM:PF05707.11	Zonular-occludens-toxin-(Zot)	MITYLVGNPGSGKTYYAVFMIYRLFLYEPKKTFLTKFVKPKEKPNYSYCYTNINEFKFELSDKFKKFDFDEFYLGLRNLYALYKTGATDNEVNEKAKELNLFGCVFVLDECHNFFKDKKDEILVWWLTYHRHLYQDIYLITQDLTLVNNEYKRIAEKFYRAVDSSRRLFSKKFRYEVYASFRLYKKDQLEIINIPFLQEVFNLYHSGQSSNKKSFVRFYFFLAVLVLVLLLLYFYFIVMSMFEVEKPVDENIPAFEKIHVPASQTPASSSLFYDNKKPKNNNIELPEIYIYDITCLNNNCHFSDDYHLYPLSLISYISSTHTPLYFYFEPKSHELVKYYYVFDKPVFQNLQKNNKGVSDEKFNQISNSSVSAIK*	hallmark_hmm	common_virus	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0005	shell	direct	high	1124	0.999	GCA_003048705.1_01663
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	58975	59391	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	5518	5934	GCA_003048705_1_43_52	GCA_003048705_1_43_52	-	120897	.	.	hypothetical protein	MPAIIAMIVNLFGFFKWGKVVDFVLRGITFAKMVIINGLLFASILAYVAAVLVILNFIYTKFNYIVDYINNLSIGNDKIVTTSMMVLKSLGAWNALCDVFAIFSPVLLSFFVIYATKIGIFVFKNARDTLLSFIIAKL*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0006	cloud	direct	high	416	0.998	GCA_003048705.1_01664
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	59403	60836	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	5946	7379	GCA_003048705_1_43_53	GCA_003048705_1_43_53	-	120897	.	.	hypothetical protein	MKFLLKLFCLLSLLSSFGFSENTGRGLSGFRNTSLDFYAGSLPSVNASFLSNNFIKIDNDVFQTTSPTYFGFNYSLGISWSGFRADFKNDYLFFYNPSFQKQYTYCQFDKDDNLGCSDEYEKYVGQGDFRKITFSYLERYFLSKFTTCNAGENFNTSLKQCVPACPAGQSWDTENNLCYVDCSDKDLNKFGYPNGTAQGGCVDCSNALSVDQIMRCACSGFGSTYDPGVLLYDHDSPGFVLGSCKSGRQIYFKQRDDKNPDKDKDKKNDNNSTNSSDKDKDNPKPDKDKDNSNPDKKDNNENSNNSSGESGNSSNNNSGGSAGNGSSGGGGTGVETKPNPNYNGNGKEDGKGEEGKGDDAVAQKLDYVDLKKDSDKFNSNFKDALDSVISQAQDFKNSLNDTISKIKDGGLMKFNQSAIPNTCPLTYNVDFSYFRKDITFDICKVIAPASQTLYYFFYVVFFVLFLIVTIKLFLFIF*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0007	cloud	direct	high	1433	0.999	GCA_003048705.1_01665
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	61381	61599	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	7924	8142	GCA_003048705_1_43_54	GCA_003048705_1_43_54	-	120897	.	.	hypothetical protein	MKFLASAKSKVLAGVAAVSVLSSNALAAGMTMAADGTVSGTPDIGPFMGIAGAIIGVLAVVFAVKKGFSLLR*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0008	cloud	direct	high	218	0.995	GCA_003048705.1_01668
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	61695	62174	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	8238	8717	GCA_003048705_1_43_55	GCA_003048705_1_43_55	-	120897	.	.	hypothetical protein	MALNYSSPVWTKHLFGAMLNGVSKINKLKKVLKMQIVKSDYDLKYILKGGLVRSSASGKFEGNDYSSSVRISSSNIYDVVNEKTGFTDEVEQKVIFKIICPDNNTAGLVASAIKEKFRKGEEIPVEGGFPNDQRIITIANPVEYFLFDTKPANKADKKQ*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0009	shell	direct	moderate	381	0.794	GCA_003048705.1_01669
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	62305	62556	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	8848	9099	GCA_003048705_1_43_56	GCA_003048705_1_43_56	+	120897	.	PFAM:PF07141.10	terminase-small-subunit	MTNAEIAKKLKIAEKTIYNWRKNRKELFEVIEDGLNLKENKESIYVNDTYKELIDLLEKLSQQEIQYYISDIKTRILKKEIDK*	phrogs_hmm	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0010	shell	direct	high	251	0.996	GCA_003048705.1_01670
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	62553	62981	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	9096	9524	GCA_003048705_1_43_57	GCA_003048705_1_43_57	+	120897	.	.	hypothetical protein	MRKLLILIIAIINLNAINIRPVQEQKYCKENKDRSKTEQEKIIYEIRCKETLSEKFMKEINNKVKEVKEELNKKGLDTSEKFEISLNEKEAVKSIIEAEIQKIYLQYKERYKNSPEVMEINFWKIQIDEQKDQKKKLEIIMK*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0011	cloud	direct	high	428	0.998	GCA_003048705.1_01671
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	62983	63261	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	9526	9804	GCA_003048705_1_43_58	GCA_003048705_1_43_58	-	120897	.	COG3636	DNA-binding prophage protein  [Mobilome: prophages, transposons]. 	MKEEFTKFNLEDYLTTDELRKEYLNQVLADGDIEEFKRALFYIAKSKGIENVAKKANLNRESFYKMFKENSKPRFESIFKVVNALDIKLVYA*	mmseqs_cdd	nonviral_gene	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0012	shell	direct	high	278	0.996	GCA_003048705.1_01672
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	63258	63551	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	9801	10094	GCA_003048705_1_43_59	GCA_003048705_1_43_59	-	120897	.	COG3657	Putative component of the toxin-antitoxin plasmid stabilization module [Defense mechanisms]. 	MKVLKSSTFDKWLHKLNNPIVKVSILRRLEQIETKDHLGDYKFIDTDLYELRFFNRGGLRIFFTFNGNEIVILLNAGDKDSQSDDIKKAKEILKDYK*	mmseqs_cdd	nonviral_gene	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0013	shell	direct	high	293	0.997	GCA_003048705.1_01673
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	63681	63902	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	10224	10445	GCA_003048705_1_43_60	GCA_003048705_1_43_60	-	120897	.	PDB:1Z19_B	Integrase	MWWAVRNHLGYLGTSNTHGLYVLRHTVASRLVSLKGFNAHKLMAFMGHTDIKSSLHYVHLNVDDIRDGMGVGV*	common_virus_hmm	common_virus	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0014	.	unmatched_CDS	none	0	0	.
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	64229	65227	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	10772	11770	GCA_003048705_1_43_61	GCA_003048705_1_43_61	-	120897	.	.	hypothetical protein	MFKFGVLVCIPFLMLNFTFAQDISTSNVEKNSTFMLKTLKQMNIPFSGDEYEIENLSKLDDKMLAAVKASLPKQTALYDAIKGDLNKDDIEDAVVVTQETFKDKFLTFSDSCDGSTKDDKWCQIVNKNRRGIVILLSNGDKYEAVVTKRDIFESPNEDGGAYFPPELAVEIKNSELKFFYSYGKYGYWEYVFALDGKDFRLVKYLSNVNNGPVPEYIVQMDFVNHRLDKSANLLYPGNEEHKRYKECIEKYKSLNDAQEDDGYDGVFIRKSYELKTQEILLSEVKKVDYIDGRWLDYLQNLKELGKILKIDFWSEYPGDSEDELARCVADKI*	.	hypothetical_protein	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0015	shell	direct	high	998	0.999	GCA_003048705.1_01674
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	CDS	65252	67240	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	11795	13783	GCA_003048705_1_43_62	GCA_003048705_1_43_62	-	120897	.	PDB:4KFU_C	Genome-packaging-NTPase	MLIVLGYFVYKNFKKFDFDFAQFVVGIFLFFVAFLMFQALTTSGANSGVIGGFIVSALKEVIGAIGTAVAILMIFIISLGLAFRENFIIVLRKAFVDKEPNSYEEKSRGVKEVRARQIPKIESKKPKAEEIREEELIDAQVLNDDEPNLESEPEPEMEPAQESRPATISGVEILNEVAENKKLLDQIERGKVEKPKDFVLPPLKFLNDPPKRSHNINEAEIDQQISNLLDKLRKFKIDGDVVRTYTGPIVTTFEFRPAPHIKVSKILTLQDDLAMALKAQTIRIQAPIPGKDVVGIEVPNQNLETIYLKEILESEVFKNASSPLTMALGKDIVGAPFVTDLKKLPHLLIAGTTGSGKSVGINAMLLSLLYRNSPQTLRLMMIDPKMLEFSIYNDIPHLLTPVITEAKKAITALSNMVAEMERRYKIMSQTRTKNIESYNEKMKSEGGEQFPYIVVIIDELADLMMTSGKDVELYIGRLAQMARASGIHLIVATQRPSVDVVTGLIKANLPSRISYRVGQRIDSKVILDQMGAESLLGRGDMLFTPPGSPGVIRLHAPFASEKEIETIVNFLKEQQDVIYDEKFLAEEGSSAGSATGVLGEEELDELYEEAKEIILSEQKTSISYLQRRLKIGYNKAANIIEQMEKMGVLSPVNAKGQREILV*	hallmark_hmm	common_virus	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_CDS_0016	persistent	direct	high	1988	0.999	GCA_003048705.1_01675
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	tRNA	54084	54158	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	627	701	tRNA-Gln	tRNA-Gln	+	120897	.	tRNAscan-SE score: 52.9	Gln	NA	tRNAscan-SE	.	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_tRNA_0001	.	.	.	.	.	.
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	tRNA	54186	54260	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	729	803	tRNA-Met	tRNA-Met	+	120897	.	tRNAscan-SE score: 74.7	Met	NA	tRNAscan-SE	.	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_tRNA_0002	.	.	.	.	.	.
GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote	cenote	tRNA	63571	63652	GCA_003048705.1	PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705.1_PIRL01000005.1	GCA_003048705.1|PIRL01000005.1	GCA_003048705_1_43	GCA_003048705_1_43@C5	10114	10195	tRNA-Undet	tRNA-Undet	+	120897	.	tRNAscan-SE score: 23.3	Undet	NA	tRNAscan-SE	.	C5	13783	53458	67241	GCA_003048705.1|PIRL01000005.1@region_53459_67241@tool_cenote_tRNA_0003	.	.	.	.	.	.