CRISPRimmunity

Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NZ_CP011044	Clavibacter michiganensis subsp. insidiosus strain R1-1 plasmid pCI1, complete sequence	0 crisprs	NA	0	0	0	0
NZ_CP011045	Clavibacter michiganensis subsp. insidiosus strain R1-1 plasmid pCI2, complete sequence	0 crisprs	NA	0	0	4	0
NZ_CP011043	Clavibacter michiganensis subsp. insidiosus strain R1-1 chromosome, complete genome	1 crisprs	csa3,DEDDh,WYL,cas3	0	1	0	0
NZ_CP011046	Clavibacter michiganensis subsp. insidiosus strain R1-1 plasmid pCI3, complete sequence	0 crisprs	NA	0	0	0	0

1. NZ_CP011045

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site
DBSCAN-SWA_1	0 : 7441	10	Mycobacterium_phage(100.0%)	NA	NA
DBSCAN-SWA_2	15560 : 16460	1	Streptomyces_phage(100.0%)	NA	NA
DBSCAN-SWA_3	33101 : 38809	9	Mycobacterium_phage(40.0%)	NA	NA
DBSCAN-SWA_4	43122 : 47083	5	Mycobacterium_phage(33.33%)	NA	NA

Sequences of DBSCAN-SWA_1

Nucleotide sequences of DBSCAN-SWA_1

>NZ_CP011045|0:7441|DBSCAN-SWA

Protein sequences of DBSCAN-SWA_1

>NZ_CP011045|0:7441|3331_3709_+|WP_045530938.1|DBSCAN-SWA
MSHISRTGNLAGTPDLRQGPKGPYTYAAVIVNDRYQDDNGTWVQGPPIRYELAVSGTQAVALVATAKACGNIRVTFSGAYTVREFQGDKGAILQHKVFVDEIGASFFGQDVTVARRTASTTPSAA
>NZ_CP011045|0:7441|670_991_-|WP_045530864.1|DBSCAN-SWA
MVIGVDYLMTDDQVQRIREEPVHVAYRGLALVVQASGRVSRLEQFERYDRHAELEVVHGDDVVAYIARDSEDQRLFFTARMFDVGLLGWGTRTLMDGIAAVLGERE
>NZ_CP011045|0:7441|4229_5003_+|WP_045530870.1|DBSCAN-SWA
MRARARRLYLLAALVVGLGTLAAGYYAVDFVSPDVKADETTPAASGAPAAASSGPVVDALTSAGLVHGGTVDATAVRTLVDALPADTHARTPNYDRAAYGPSWADTDHNGCDQRNDVLARDLTAVTYTKTDPGCTVATGHLADVYTGRSIDFTRGKATSAAVQIDHLVPLGWAWQHGAATWTADRREKFATDFNNLQAVDGPTNEAKSDQGPATWLPPAAGYDCLYVTRFAYVLHAYSLTIDDADRAAIDHTLNTCH
>NZ_CP011045|0:7441|27_498_+|WP_158385436.1|DBSCAN-SWA
MRGGRAVQEGSPLAHEFFGIQQEYGYHGDALGKLAAATLTKAQHVALAVVLGGIEASLSRDSWRSARPEVAEYLRQLAAWGYTLSEVEQLIVDTDEKRRAARDADDAADDAEVDTEAAETDTDAAEVDTVTDDDGPEPVNVDPAEEDPEPDPAEAA
>NZ_CP011045|0:7441|6952_7441_+|WP_052663292.1|DBSCAN-SWA
MKISAQERFWRHVVKGPDPDDCWIWTGAVSDDGYGRFWLPVSGGRQRAVRPQRYAYQEMTGVALPSRTLLLHACDVPICVHVDPDPRRSHATPGTHRQNMLDRAQKGRHVNQWTAVHYRGLPRAERVRRSRALRDAVRDHGWDPTLIHRALNGIDPDQPMLW
>NZ_CP011045|0:7441|5028_5409_+|WP_144407240.1|DBSCAN-SWA
MTTTQPSYGDDELWTCAVAPSCIPDEPGGTLNGLSDCSGCGNQMWVGYAPWSADEYDLDGALERLIHGGANDNDGKALAAALAELYELRARDKDRLARDRRKAETSEREIAPFVPPPPPATRSTTP
>NZ_CP011045|0:7441|1388_2291_+|WP_045530866.1|DBSCAN-SWA
MTTSTAAPRKTTAPRKSPKERKAQAEALHASIAAQIDALRDTNEWRRYLDRVRDFHQYSIGNLLLIMQQCPHARAVAGFRQWQARGRQVRKGEKAIRIFGYSQKKITEEDAQGEETERRIPRFPILSVFDVSQTDPVDGVEDAELVHDLTGTTDHGVIDALTAFLAAEGWTVARKHLDGERKGYARPSDRSVVVEVDVAPEQAAKTLIHETAHVVLGHTDDLAGYWEHRGTHETEAESVAYVVAGMLGFDTSAYSIGYIAEWADCDPELVKNTATRVLAAAHHIAAVLDPDDPHDTPAAA
>NZ_CP011045|0:7441|2765_2927_+|WP_158385430.1|DBSCAN-SWA
MESNRSGNDENGAPMNTTSANDQNLAQAVGTSTVDEYVVPVDPMDLLQCDSCQ
>NZ_CP011045|0:7441|3711_4233_+|WP_045530868.1|DBSCAN-SWA
MLDSLTGSDEDSTPDTDEDTQLVIDVYGAYETARSAARHAIENGQPADDAASEMAPAKEWAVMNASWIGLFPVQGALCGAVETLLDQDVAAHAVDPAPDPGAGGWTDAAHDHATAVRWVTEALERNSDARDIDLMVAETLEGPGLTGDLRIRELVVEIIDVASSAANSCRDAL
>NZ_CP011045|0:7441|5485_6736_+|WP_052663291.1|DBSCAN-SWA
MSTIDRSLAELANALTFGVSGDDSAAHAARGAAAQAALTRHSEQLDRAYASAGGQVDPWFAPPFGADLVAGAGGDLDAVLASPAFVPEVQREAGLAADEEFVHDEDGERWVQFTPEARHVDEAYECARAVAAQLIERGDASPTAVVGAGRTYGDLLMLTAEQRTTVLDGIREIGEASGDADGRFAAVAEYVERHSELPQRADLRDALVTVFEGQLWTEGARDVPDHLHDLVAEVLPGEASAEAVEPARDGRGLPMLTAEQRTTLLEAIDATREASGDTDGRFAFLGGLIAMWGEVPERPDLREALATVLEGQFGTPSAPDLPEHLREVVDYVVPDEARGDSHELRPTDGMATVRSEESATQLPSTMYSPREFAEREMLRAAGINPDERAAQPVPSSQAMMLQPEVQRTRGDDPLER

Homologous phage analysis in the prophage region

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_158385436.1|27_498_+	hypothetical protein	NA	NA	NA	NA
WP_045530864.1|670_991_-	hypothetical protein	NA	NA	NA	NA
WP_045530866.1|1388_2291_+	DUF1738 domain-containing protein	NA	NA	NA	NA
WP_158385430.1|2765_2927_+	hypothetical protein	NA	NA	NA	NA
WP_045530938.1|3331_3709_+	single-stranded DNA-binding protein	NA	NA	NA	NA
WP_045530868.1|3711_4233_+	hypothetical protein	NA	NA	NA	NA
WP_045530870.1|4229_5003_+	HNH endonuclease	NA	NA	NA	NA
WP_144407240.1|5028_5409_+	hypothetical protein	NA	NA	NA	NA
WP_052663291.1|5485_6736_+	hypothetical protein	NA	NA	NA	NA
WP_052663292.1|6952_7441_+	hypothetical protein	A0A2P1N3E9	Mycobacterium_phage	6.7e-08	37.8

Sequences of DBSCAN-SWA_2

Nucleotide sequences of DBSCAN-SWA_2

>NZ_CP011045|15560:16460|DBSCAN-SWA
GTCAGAGGCCGTCGACGGGACGCCACACCTGGGCGTTCGGGGTGCCCCAGACGGTCTGGATCTTCACGACGTCGCCGACCTTGGGCGCGGCGATCATCATGTTCCCGCCGAGGCTGATGCCGACGTGCCAGGCGTCGTTGCCGCCCCAGAAGATGAGGTCCCCGGGCTGGACCTCGGACAGCGGATGCATCTGACCGCGCGCGACGCCGTTGCGCCACTGCGTCGTCGACGAGTGCCCGTCGTCGATGTCGATGCCGACCTGTGCGTAGGCGACCTTCGTGAGCCCGGAGCAGTCCCAGACGTCGGGGCCCGCTCCCCCGAGGACATAGGACTTCCCGAGCTGCAGCTTCGCGAACGCGATGACCTGGTTGATCTCGGCCGCATGCGGGCCGCGCGCGGGCTGCTCGCCGTCCGCGAGCTCACCGGGATCGGCGGTTCCTGCGCGCGAGCAGGCGAGGCCCTCATCTGTGCTCGAGACGGGCACGACGGTCGTCCCCGAGAGCGCGTTCATCACCTGTGCTGCCTCGGGTAGGTGCGTGGCGTACCGGTCCGGGAACGCCGAGCGCTCCACCGCCTGTGCGGCCTCGCCCGGCTCTTTGCTCTCCCACCCGGGGACCTGCGTGAGGCGCTCGTAGAACAGGTTGATCGCGTACCCCGTGTCCGTGATCTGCGCGAGCGTGCCCCAGCCCTGTGAGGGGCGCATCTGGAAGAGGCCGGCGGAATCGCGATCGCCTCCGCCGAGGTTGCGGAGCCCTGACTCGGTCATCGCTGCGATCAACGCCACCTGCTGCGCGTGCTGGTTGAGACCGCGCTGCTTGCCGATGGTGAGGATCGAAGCCGCGTTCGCGACCTGCTCGCCGGAGTACGCACCCACCGCGGCCGGGAGCTGACCGGACTCCAC

Protein sequences of DBSCAN-SWA_2

>NZ_CP011045|15560:16460|15560_16460_-|WP_052663295.1|DBSCAN-SWA
MESGQLPAAVGAYSGEQVANAASILTIGKQRGLNQHAQQVALIAAMTESGLRNLGGGDRDSAGLFQMRPSQGWGTLAQITDTGYAINLFYERLTQVPGWESKEPGEAAQAVERSAFPDRYATHLPEAAQVMNALSGTTVVPVSSTDEGLACSRAGTADPGELADGEQPARGPHAAEINQVIAFAKLQLGKSYVLGGAGPDVWDCSGLTKVAYAQVGIDIDDGHSSTTQWRNGVARGQMHPLSEVQPGDLIFWGGNDAWHVGISLGGNMMIAAPKVGDVVKIQTVWGTPNAQVWRPVDGL

Homologous phage analysis in the prophage region

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_052663295.1|15560_16460_-	C40 family peptidase	A0A2L1IVP0	Streptomyces_phage	2.5e-24	52.9

Sequences of DBSCAN-SWA_3

Nucleotide sequences of DBSCAN-SWA_3

>NZ_CP011045|33101:38809|DBSCAN-SWA
GATGTACATCACCTACGAGCGCCCCGACCACCTCCACGACCGCGAGCTCGACCCGCATGCACCCGACGCCGACCTCTCCCCCATCGGTGAGACCTGCAGCAAGACCACCAACGACGTCGCGGGCATGGAGTGGACCTGCACCCGCCGCCCGCACACCGAGAGCGAGCATCGCGCAGCGTTCGAGTACCGCGGCGACGGCCCCCAGGGCGAGGTTGCGATCGCGTGGGAGAGCAACTGGGGCGAGCCCGCCAATCGGCCCCGGATCACGAAGACCATCACGACCACCATCACGTCCCCCGAGGGGATGAAGCAGTACCTCAACGACGACGACGACGACGACGTGCGCAGCATCGAGCGGGTCGCGTGGGAGAGCTTTGACGAGGACGACCACGACGAGCTGACGGTCACCACCGCCGTCGCTGAGGGCAACGCGGCCACGACCGCTCTCGCCCAGTTCGTCGAGGCGTTCTCCGCCGACGACCTCGCCGGGGACCTCGCATCGGCCATGAGCTGCATCGAGGCCGACGCCATCGCTGCCGTCCTCCGCACCCAGGGCGCCGCCGATGCCGCCTATCGCTGGACTCGCCTCCACGCCGCAGAGGACGAGCCCGTCGACACCCACCACTCCCCCGCGCCACTCGCACCCGTCGAGTACGTCGACCCCATGGACTCCCTCGGCTGCGACAGCTGCCAGTGAGTGTTCAGTAAGCACGTGGTTACGGAACTACGTGCTTACGGAGGGATAAGAGCCGTAGACCTACTCTCTCCGTAATCACGTAGATACGCGATCAAGCGACTGCGCGTTTACGCGTTTACTGAAACGCGTAACTCCGCTAGGATTGGACTCATGAAGGTCATCACGGTCACCAACTTCAAGGGCGGGTCGGGCAAGACGACCACGAGTGCCTACCTCGCGCACGCGTATGCGGCGAAGGGGAGGAGCGTCCTCCTGATCGACGCGGATCCGCAGGGCTCCGCCCTGCGATGGAGCGAGCAGGGGGAGTGGACCATCCCCACGATCTCTCTGCCGGTCAAGGATCTGCACAAGCGCCTGTCGGGTTTCGTCCCAACGTCGACCGAACTCGTCATCATCGACACTCCTCCGCTGGAGGAGCAGGCGGGCATCGTCATTTCGGCCCTGCGGGCCGCCGACGTCGCCATCGTGTCGATGGCGCCGACGATGGGGGAGTACGAGCGCCTCCCCGAGGTCTGGGCTGCCATCGATGACGTCGAGGCGCTGCGGGCGACGCCCCTCATCACGGCGGTACTGATGAACCGGACCATCACCAATGCGAACAGCACGCCGATGTACCGCGAGCTCATGGAGGAGAGCGGGCGGACCGTGCTGCGCACGACCATCCCGCGCAGGGAGCCAATCGCTCAGGCGTTCGGCGCCCCGGTCACCGACCTCGGCAAGTACGCCGACGCCGCCCGGGAGATCGACGAACTGGAGGCCGACAAGTGAGCAAGGCAGACGAGCTCCGCGCGCGCGCGCAGCGCGCGGCAGGCAGAGCAGGATCATCGGCAACACCATCGGCGGACGAGCCGGCCCAGGAGCGCACCGCGCCTGCGCCCGCACCGAAGCGCGCGCCATCCGTACGGGCAGATCCGATCCGCATCACCGCCGACCTACCGCCGCAGCACTACCGCGAGCTCATCGCGTACGCAGCAGGCATTGCCAGTGACCTCGGCAGAGCCAAGGTCGCTCACGTCCAGGTCGTGCGAGCGCTCGTCGCGGAGCTTGCCGAGAGCGATGACCTCCAGCGCCGCATCGCTACGCGGGTCGAGCAGCAGCTCGACTCCTAGTAGTGATTCAGTAACGCAGTAACTACAGCAGGGGGGCGGCGATCTTTAGCATGGAGATCCCGGGACTCACGCCGAAGGAGCAAGACGCTTGGCACGCTGGCTTCCTCAGCGGCAAGGCCGACCGTCAGGCGGAAATCGATGAGCTGAACGACCTCGCAGATCGGTACTACCGCGCCGCCTACGGCGACGAGCGCCGCCTCCAGGTCGGCGGCATCAGCCGTGCCGAGCTGGAGGCCCGCCGCCAGCAGCAGCCCACCCCGCCGCAGATCACCCGCGAGGAAGCGTTGGCCTCATGGGGCCTTGATCCCGAGCCGCCGCCGGCCGAGGCGCAGCCCGCGCCGCCTACAGCGGGAGATCCCGCGCCGACCCACACCCCCCGTACCAACCGCACGAGCAGGAGACGAGCCATGACCACACGCACCATCACCGGCCGCGTCGCGGCCGACCCCGAGGCCGTCCAGGCTGGCCGGGTGCAGATCGTGAAGTTCCGCGTCCTGGAGAACACGGGGGAGTACCGCAACGGCACCTGGACCGAGCACCCCACCCCGACCACGCACCACGTCGAGGCGAAGTTCGAGCTTGGCGCCAATGTGCTCGCGTCCCTGCACATCGGCGACAGCGTGCTCGTCGTCGGCTACGAGGTGACCCGCACGTGGGAGAAGGAGGGCAAGCCCCGCTACGGCCGTGTCATCGAGGCCGACGCGATCGGCCCGAACCTTGCCCACTCCACCACCGTCATCACCTCGCAGCGCCGCCCACGGGCGACGTCGACGGGGGAGTAGATGCCCCACAGATCCGCCCCCGGCCGCCGGCTCTCGTCTCCTCCGGCCGGGGGCGTTTTACGCCCGCGCATACTGGGCAGATGACCTACGAGCTCGCGCACCGGCCCCACATGGAGAGCAGCGCCGAGCTCGCCACGGGAGACGCCCAGTCGTCCTGGGCCGCCGTCGAGCAGCTACGCCAGAGGATCCCGGCCGAGAACGTCATCCTCTCCGCCCGGCCCCTCAGCTAGGCGCTCGACGTCGACTCGCTCCGCTCGTCGACAGCCGTCGGTGCCGCGGCCGCGTGCTGCGCGGCGAACACGATCAGTCGATCGCTGTTCTGCATCATCCACGCCACCGCTGAGTTCAAGGACTCCTCGCGGCGTACCCAGATCCGCTGCCCGCGCCAGTTCCGCGCGTCCGCGTAGACCTCGAACGTGAACGTGTCCCCGATCTCCGCCCGGACCCGCATCACGAACCCAAGGACCGGTTGGTCCTCGACCTGCACCCGCCAGTAGCCCGCCTTGAGATGCGCCCACGGGTGCTCTCCCGTACTACGCACGAGGCTGTCGATGCCATCGAGCTTGCTCTTGACCTTGCTCACCAGTTGTTCTCCTTCGTCGATCGAGTCGATGCAGGAGCATCCGGCCACGCTCGTCGACGAGCGTACGAGCGCACACCGACACGCGGCGCCATCGGCGGTGGGGGAGCGGGGCTACCGGTTGCGGAACAGGGCCATCAGCTCCGCGGAGATCCGGCCCCGCACGCCGACCTTGTGGCCGTCGTCGCGAAGCCAGTCGCGCGCCTCGCTGCGCTCGGCAGCGTCACCGCTGGTCGCGGCTTTCGACAGCGGCCGCGGCGCCGGCCCCCGGCGCCCGCGGTCAGCCTTCCGGCCCGCGGCGATGTACGGCGCGAACGCCTCGCGCAGCTCGTCCGCGTGTTCGGCGCCGAGGTCGATCTCGTAGTCCGTGCCGTCGACGGAGAATGAGACGGTCGTGCCGTCCTCGTCGAGAACGGTCCCGTCGAGGTCGTCGACGAGCTGTGTGGTGGTCTTCTTCGCCATGCGTGCCCCCTGGCAGTCGATAGGTGTGCTCGGAGTCTAGGGAGCCGGGAAATGCGCCCGGTAAGGTCCGGATCTGGTTGACGGGATCCGGCGGGTTGTTCCGCACGCTGTTTACATCTCGGCACGCCTCGTAGTGCTCCAGGTCACATACGACCTGGAGCGACTCCCCGTCGAGGAGCTTGAGTAGGTCCTCCGCCGGCAGGTGGTCGCCGAACCAGTCGTCGTACGCGTCCGAGGTCAGCACGCCCGGCATTCGGTCGAGGACCTCGCCCGGCGCCACGCGGGCGTCGCGGGTGATGATCGCCGTTGAGGGGCGTCACTTATCGGGTCGTCTTCCTCCTTGGAAGCGGAAAGCTTTGAGCAAGCCGAGCACGGTAATGACCGCGATGGCCACGAGCTGGCTGACCCAGCCGACCAGGACGCCACCACCGGCCTACCACGTCCGTCAGCGGCCCTACGCCTCCACCGCAGCGACCTCGACGTGACTGTGCGGCACCGGGCGATAATCGTCCAAAATCGCAACCTCGCTGAGTTGCGGCATATCCATTACTGAGATTGCCTGGCTGGCCACGGTCGCCAGCGCGCGGGCCATCAGAGGGGGCACGGCGTTGCCAATCTGCTTGAGCATCTGCCATTCGCTCGAGTGGAAGACAAACCCGTCATGAAACGATTGCAAGCGTGCAGCTTCGCGAACAGTAATCCATCGCTCGAACTTCGGATGTACCCACTCCGAAAGATCGCGATGCATCTGCGCGAGTATTGTGTACGCAGGCTTGTCAATAGGGAGCCGCCGCCACTTCTCGGGACGCAGGCCATTCCAAACATCCTTTGGCAGGCTGTCGCCCTTTGCACCCGGCTTCAGTAGCGCAATGAGCGCCTTCCTGCGGTCCTGGATTTCCTTGGTGTGGTGGTTGTACAGCCGGTTACTCGCTCCACCGGCCTGAGCGACCTTCTCCTCGGCGTCGTAGTGCTCACCGCTGCGGTCGAGCCGCATGTCGTCGAGGATGGCCGATTTTGCTCCGGACCGCGGGTACCGAAGCGGCTCGTAGTGGACAGCCGTATTCTCGGGCATATCACGGATAGCATCCCAGACCGACGGCGCAGGTCGCTCCTGCGCCGCAAGGGCGCGCTCAAAAAACGCTCCAACTGATTCGCCGAGGTCAAGACCGTCGCGAACCCCGAAGAAGATGGCTCGACGACGAGTCTGAGGCACACCGTAATCTGCTGAAACGACGATCCGAACTGCGCAATTGCTGTATCCGGCGGCTGCGAGAGCAGCGAGTACCTCTCTCTTGAACATGCCCTTTCCGATAGACAGCATGTTGGGCACATTTTCCATCAAGAATGTCTTAGGCTTTAATGTGCTCAGCACGCGAATAAACTGCATGTACAACTGGTTACGCGGATCGTCGAGCATTCGCGGGCCAATCTGGCTGAAGCCTTGGCAGGGCGGGCCTCCGAACAGGAGGTCGATGCTGCCCTCTTCAACACCGTCGAACCGGGGCGCTTCCTCTAGCCACTGTTGTGACTCGCTATCGAGGAACGAGGTGACGTCACCCTCGAAGAGCGGAGTCTCCGGGAAGTTCGCTCGGTAGGTCTGGGCGGCGAACCGGTCGATCTCCACGGCGGCCTTCACGTCGAACCCGGCCGATCGAACCCCCTCGCAGAACCCTCCGCATCCCGAGAAGAGCGAGACGGCGGTGGGCTGGGAGGCGAACACAGAACGGGGCATGCAAGGACCGTAACAAGAACCACCGACGATCCTGTGACGGACCGGCGCGTGTCGCCCATAAGAGACATGCGAGGTGTCGTCGGGTTGATGGGCTCCATCCCCCATACCGTGAGGTCGTGATCGGAGGGCCGGATGCAGAGTCGTTGGGTCTTGTCGTGCGCCGCGCTCGTGTCGCTAGGGGCCTCTCACAGGGAGAGTTCGCTGCCGCCTGCGGACTGTCTCGGTCCTACGTGAGCGCGCTCGAACATGGTCGCGAGAACCCAACCCTTGAAACGGTCGCGCGGGTTGCGCGTGCGCTAGGTCTCCGATCGAGCGATCTCATTCGTAAAGCAGAGGACTTCGACTAG

Protein sequences of DBSCAN-SWA_3

>NZ_CP011045|33101:38809|36382_36730_-|WP_045530914.1|DBSCAN-SWA
MAKKTTTQLVDDLDGTVLDEDGTTVSFSVDGTDYEIDLGAEHADELREAFAPYIAAGRKADRGRRGPAPRPLSKAATSGDAAERSEARDWLRDDGHKVGVRGRISAELMALFRNR
>NZ_CP011045|33101:38809|38578_38809_+|WP_080939410.1|DBSCAN-SWA
MIGGPDAESLGLVVRRARVARGLSQGEFAAACGLSRSYVSALEHGRENPTLETVARVARALGLRSSDLIRKAEDFD
>NZ_CP011045|33101:38809|33101_33797_+|WP_052663296.1|DBSCAN-SWA
MYITYERPDHLHDRELDPHAPDADLSPIGETCSKTTNDVAGMEWTCTRRPHTESEHRAAFEYRGDGPQGEVAIAWESNWGEPANRPRITKTITTTITSPEGMKQYLNDDDDDDVRSIERVAWESFDEDDHDELTVTTAVAEGNAATTALAQFVEAFSADDLAGDLASAMSCIEADAIAAVLRTQGAADAAYRWTRLHAAEDEPVDTHHSPAPLAPVEYVDPMDSLGCDSCQ
>NZ_CP011045|33101:38809|37184_38462_-|WP_080939409.1|DBSCAN-SWA
MPRSVFASQPTAVSLFSGCGGFCEGVRSAGFDVKAAVEIDRFAAQTYRANFPETPLFEGDVTSFLDSESQQWLEEAPRFDGVEEGSIDLLFGGPPCQGFSQIGPRMLDDPRNQLYMQFIRVLSTLKPKTFLMENVPNMLSIGKGMFKREVLAALAAAGYSNCAVRIVVSADYGVPQTRRRAIFFGVRDGLDLGESVGAFFERALAAQERPAPSVWDAIRDMPENTAVHYEPLRYPRSGAKSAILDDMRLDRSGEHYDAEEKVAQAGGASNRLYNHHTKEIQDRRKALIALLKPGAKGDSLPKDVWNGLRPEKWRRLPIDKPAYTILAQMHRDLSEWVHPKFERWITVREAARLQSFHDGFVFHSSEWQMLKQIGNAVPPLMARALATVASQAISVMDMPQLSEVAILDDYRPVPHSHVEVAAVEA
>NZ_CP011045|33101:38809|35768_35918_+|WP_168371653.1|DBSCAN-SWA
MTYELAHRPHMESSAELATGDAQSSWAAVEQLRQRIPAENVILSARPLS
>NZ_CP011045|33101:38809|34561_34906_+|WP_045530913.1|DBSCAN-SWA
MSKADELRARAQRAAGRAGSSATPSADEPAQERTAPAPAPKRAPSVRADPIRITADLPPQHYRELIAYAAGIASDLGRAKVAHVQVVRALVAELAESDDLQRRIATRVEQQLDS
>NZ_CP011045|33101:38809|35914_36271_-|WP_080939408.1|DBSCAN-SWA
MSKVKSKLDGIDSLVRSTGEHPWAHLKAGYWRVQVEDQPVLGFVMRVRAEIGDTFTFEVYADARNWRGQRIWVRREESLNSAVAWMMQNSDRLIVFAAQHAAAAPTAVDERSESTSSA
>NZ_CP011045|33101:38809|33947_34565_+|WP_045530911.1|DBSCAN-SWA
MKVITVTNFKGGSGKTTTSAYLAHAYAAKGRSVLLIDADPQGSALRWSEQGEWTIPTISLPVKDLHKRLSGFVPTSTELVIIDTPPLEEQAGIVISALRAADVAIVSMAPTMGEYERLPEVWAAIDDVEALRATPLITAVLMNRTITNANSTPMYRELMEESGRTVLRTTIPRREPIAQAFGAPVTDLGKYADAAREIDELEADK
>NZ_CP011045|33101:38809|34956_35688_+|WP_080939407.1|DBSCAN-SWA
MEIPGLTPKEQDAWHAGFLSGKADRQAEIDELNDLADRYYRAAYGDERRLQVGGISRAELEARRQQQPTPPQITREEALASWGLDPEPPPAEAQPAPPTAGDPAPTHTPRTNRTSRRRAMTTRTITGRVAADPEAVQAGRVQIVKFRVLENTGEYRNGTWTEHPTPTTHHVEAKFELGANVLASLHIGDSVLVVGYEVTRTWEKEGKPRYGRVIEADAIGPNLAHSTTVITSQRRPRATSTGE

Homologous phage analysis in the prophage region

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_052663296.1|33101_33797_+	hypothetical protein	Q857E4	Mycobacterium_phage	3.4e-05	50.0
WP_045530911.1|33947_34565_+	ParA family protein	A0A0N7E4H5	Mycobacterium_phage	6.9e-18	33.7
WP_045530913.1|34561_34906_+	hypothetical protein	NA	NA	NA	NA
WP_080939407.1|34956_35688_+	single-stranded DNA-binding protein	NA	NA	NA	NA
WP_168371653.1|35768_35918_+	hypothetical protein	NA	NA	NA	NA
WP_080939408.1|35914_36271_-	hypothetical protein	NA	NA	NA	NA
WP_045530914.1|36382_36730_-	Lsr2 family protein	A0A160DF84	Gordonia_phage	7.3e-09	34.5
WP_080939409.1|37184_38462_-	DNA cytosine methyltransferase	M1PSQ0	Streptococcus_phage	1.3e-47	33.8
WP_080939410.1|38578_38809_+	helix-turn-helix transcriptional regulator	I3VYZ1	Thermoanaerobacterium_phage	1.5e-05	39.3

Sequences of DBSCAN-SWA_4

Nucleotide sequences of DBSCAN-SWA_4

>NZ_CP011045|43122:47083|DBSCAN-SWA
TTTAAGGGTCCAGCGAGTCCGTCGTGCGCGCCTCGATGAGCAGCGTCGACCGGAGCTCGTCGTAGTGATCCGTGTTGCCGAGGTGGGCGGCGTTGATGGATCCCAGGACGGCGTCTGCGATCCACAGCAACGGCTCGTCTCCGCCGCGCTGGTGGCCGATGCGGAGCCGCCGGTCAAGCCCCTGGGCCTGCAACCCCACGATGTGGGCCCGGTCCGCCTTGTCCTGGCCGTCGGACCGGCACTCCAGGGTCAAGTCGAACGTCTCCATCGTGACGAGCTCGTGATAGAGCGTCTCGAGGCTCTTGCGCCGGTACCGCTCGACCTTCTTTCGGTACGTGTCGAGGTGGGAGACGACGATGTTCATGGGCCCGAGCTCGACGATGCGAGACACGATGTCGCGATGGCGCCGGTCGCTCTCATCCGTCCAGTGGAGCTTGATCTGGCCCGGCAGCAGCAGCGGCCGCAGCTGCTCGCGAATGCTGTCGCAGTCCGCCTCGTCGATGAGCGCCGCGCAGACCAGGTACTCCTGCCGCTCTTCGCCCCGGCTCGCCGTTGACTCGTCGAGGAAGGCACGGAAGGCGGAGGGGGGCACTCCCCCACGCTAGCCACCCACGCGCCGACACTTGTCCGGGCAGCGTGCGCCGCGACCACGTCGGACACGAGTTCGACGGTGGTGCATCCGTGCATCACCGCTACTTCGAACCCGTGATCTCCTAGAGGCGGATCCACGCGGTAGGGGTATGGATCTATTCGCTCAGAGGGGGCACGTTGGCCTCAGATCGACTTCTAAGCGCCAACTGTCAACTACGGGTCAACTACACCCACCCGTGATGCAATCGTGCCTCAAATCGCATTTTTCGCCCCTTCCAGTGGGTGGGTCGACTACGATGAGACAAAGAAAGACCCCGAGTGGCACGTAGCCACCTCGAGGGTGGCCGGCTACACGGGGTCCAGAGTTCTTATCTAGGGAACCTCTTGATCCTAGCCCGCTACGCGACGACCCCGTCGGGGTACGTCTCGCAGCGGGAGTGGTCGGCCGAGACCGCACCATGGCAACTAAGCCCCCGCTGCACTCCGGCAACATCGCCCCCAGCTCCGGCCAGTACGCGCTCGTCGGGCCTCGTGGAGGCGATACCGGGCAGGAGCGCACCGTCACCCGTGGCGAGCCCCTGTCTCCCACGCCGCGCCCCGGCATGGGATACGTCCAGGCCGATCGGACCCGCAACGGTTCGGGTCGCAAGTAGCACCAGCAGCATCGGGCGCATCGCCGCCTGATCTGCGCGTCCGGTAGAACACCGGGACAGCGAAGCGCACTCATGCGCTCACGCACGGCGATGGCCCTGGGACATGTCCCAGGGCCATCGTCGTTTGTGTCCTGCATCCCTTGTTTTGTGAGACGCCTTGTGGGTCGTGCTCTGGCACTTCAGACCAGCCCGGGGGTTCCTGGCGGTCTGGGCGTCTGTCGCGGGAGCGTGCAGCGAGGCGTTACGCGTAGCAGTCCAGGGCGGCGGCCATGTGCTTGTCGCTCATGTAAACGAAATCGGAGACCAGCATGCCCCCTGTTCCCGGCAGTGGGAGCGATGGGGCCGCGATGGGAAGTACGAGGACAACGGCGAGCCCGCGCGCACGCGCAGCGGCCCGGGCGTTCAGTCGATCGGCCGACTGCGAGGTCCAGTCGCGGATCACGGCCTCGTCTGCAGATTCGATCCACGCGTCGCGGGCCTCTGTGTCAATCCATGCCTCCCCGGGGGGCGGGGTCGCGAGCACTGGGGGGATCGCGCGCGCCATCGGGCCGAGGTCTCCGGTCTCGAAGAACCTGGAGACAAGGGCCTCGCGAGAGGGCGACGCGATCGCCCACTCCAATGACTCGATCCAACGGACGGAGAGCTCGTGGACGAGGAGTGCCGCGTCGTCGGCGGCTAGGGCCGCACTCACAGGAGCGGGCGTGAGTGACTTCGGGATGGCAGTGACCTCGGAGCCGCACGCGTCTCTTGCGTACAGCAGCCGCATCAAGTGTCGGTCGTGCACGAGAGTCATTCCCTCTGTGCCCCTTCGCCCGGACGTTGTGGGGATGTGCTCGATGCGCATGGATCTCCTCGGGTACTAGCACTGAGGGGAGGATCTTCCGCATTCAAACTCGGAAGCAGACGTATCTGTGCACAGCCCTACGTGAGAAGTCCTCTCACGCCTTCGTCGCGTGGTCGCAGTCCCGCAAGCCTTGGGTTGTGGGACGTCCCGCGAGCGGTCGAAGCGCTCCGCGGAACACCGCGGCCGCGAGTGTCCCGCAACCACGGCCCACAGGCGCCTACCGCTCCGCGTCGACGAAGTCGAATTTGAGCGTCCTCCTCAAGGAGCCAGGCGCTGGCTGACCCACCAACGACGAGAGGGCCGACCCATGCCGGGTCGGCCCTCTCGTGCGTCCTGGTGGCGCTAGCTCGTAGCGGCGCGGTACTCCTCGAGCAGGTCCGCGGAGATGCGGCCGCGCTCGGAGACCTTGTGGCCGTGCTCGCGCAGCCACTCCCGCGCGGCGCTGAGGTCCTGCTTCGGGGCCGAACCGGCAGAGCGGCGCGGTGCGCCCTTCCCGGTCGTCGCACGTCCGACGCGGCGGCCCTTGTCGACGTAGTCCTCGAGCGCAGTGCGCAGCTTGGCCGCGTTGTCGTCGCTGAGGTCGATCTCGTAGTTCACGCCGTCGAGCGCGAACGGGACGGTCTCACCCTGGCCCTCTTCGATCTGCGTGCCGTCGATGTCGTCAACGAGCGTGGTCACTACTTTGCGGGCCATCTAATTTCCTCCCCAAGCGGATTCAGCGCCTGTTGACGCGAGTGATTCCACCATATCTCCGCGCGTCGTCATTCGCGATACCGACGCACGTGCGGTACTCGAATCGCGCACCCCCAGCAGTTGGTTCCTCTCTTCGAGGCCCAGGGAGTGTGGCTAGTTCGCTGGGAACAGAGTGGCGAGCACTCCCGCCGTACCCGACAGGACCAGCCCGATACTCGCGATCACGAGGTCTCGGCCAGCCCCCGCACCCAGCACCCGCATGACGCTCTCCGTCTCGTACCCGGGCTGGAACGACTCTCCGTAACCAGCCCGCCGAGGTAGCCCATTGGCTAGGTGGTGTGCTTGGAACTCAGCAATGATCTCTCGCTTACGACCAGGCTCGCGTGCTTTGGCGGTTTCTTCCTCCTCGTTAAGTTCTAGGGCTCGGGCAAGTTTCTCGCGAGCGTCGAGGTACCGCACTTTGGCCCCACGGGAGATGGCGATGAGACCGCCAAGGGTCAGCAGCATGCCCACGAGCTCCATCGCTGCGTACAGCAGCTGCAAGCCGGTCCATGGCATCAGGGGGTCACTTCTTCCGCGCGGGGAAGCGCTAGCGCGGATGCGTCTTCGACGGGGTGTCGGTCCACTGCGCGGTAGACGGTGGCGCGGCCGATCGAGAACAGGTCGCACAGCTCACTGATCGAGTGATCGCCGGCCCGGTACAGCGCGACGAGGTGCCGTTCGGCGGCGGGGGAGAGCTTGGGCTTGCCGCCCTTGAGCTTGCCCTTCTTGGCTGCGACCTTCATGCCCTCCTTGGTGCGGGCGCTGATCATGTCGGACTCGAACTCGGCGAACATCGCGAGGCTGTTGAACAAGAAGTTGCGGAGGGGATCTGTCGGATCGTGGATCGAGCCACCGATGCTCATGACGGCGCCCTTCGCTGTGAGCTCGGCGCCGATGTTCCGCAAGTCGACCATCGACCGGCCGAGCCGGTCGAGCTTTGTGACCACGAACGTGTCGCCCTCCCAGCACGCGGCGAGGGCTTCCCGTAGTGCCGGGCGGTCACGGTTGCGGCCCGTCAGACCGTGATCGACGTAGATGCGATCTTCGTCGACGCCGAGGGCCATGAGGCCGTCCCGCTGCGCGGTGACGTCTTGCGCGTCCGTGGAGACGCGGGCGTATCCGATGAGTTGTCCAGCCAT

Protein sequences of DBSCAN-SWA_4

>NZ_CP011045|43122:47083|46459_47083_-|WP_045530928.1|DBSCAN-SWA
MAGQLIGYARVSTDAQDVTAQRDGLMALGVDEDRIYVDHGLTGRNRDRPALREALAACWEGDTFVVTKLDRLGRSMVDLRNIGAELTAKGAVMSIGGSIHDPTDPLRNFLFNSLAMFAEFESDMISARTKEGMKVAAKKGKLKGGKPKLSPAAERHLVALYRAGDHSISELCDLFSIGRATVYRAVDRHPVEDASALALPRAEEVTP
>NZ_CP011045|43122:47083|44606_45209_-|WP_045530922.1|DBSCAN-SWA
MRIEHIPTTSGRRGTEGMTLVHDRHLMRLLYARDACGSEVTAIPKSLTPAPVSAALAADDAALLVHELSVRWIESLEWAIASPSREALVSRFFETGDLGPMARAIPPVLATPPPGEAWIDTEARDAWIESADEAVIRDWTSQSADRLNARAAARARGLAVVLVLPIAAPSLPLPGTGGMLVSDFVYMSDKHMAAALDCYA
>NZ_CP011045|43122:47083|44170_44365_+|WP_080939413.1|DBSCAN-SWA
MATKPPLHSGNIAPSSGQYALVGPRGGDTGQERTVTRGEPLSPTPRPGMGYVQADRTRNGSGRK
>NZ_CP011045|43122:47083|43122_43713_-|WP_045530920.1|DBSCAN-SWA
MPPSAFRAFLDESTASRGEERQEYLVCAALIDEADCDSIREQLRPLLLPGQIKLHWTDESDRRHRDIVSRIVELGPMNIVVSHLDTYRKKVERYRRKSLETLYHELVTMETFDLTLECRSDGQDKADRAHIVGLQAQGLDRRLRIGHQRGGDEPLLWIADAVLGSINAAHLGNTDHYDELRSTLLIEARTTDSLDP
>NZ_CP011045|43122:47083|45551_45902_-|WP_045530924.1|DBSCAN-SWA
MARKVVTTLVDDIDGTQIEEGQGETVPFALDGVNYEIDLSDDNAAKLRTALEDYVDKGRRVGRATTGKGAPRRSAGSAPKQDLSAAREWLREHGHKVSERGRISADLLEEYRAATS

Homologous phage analysis in the prophage region

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_045530920.1|43122_43713_-	hypothetical protein	A0A068F3M6	Mycobacterium_phage	1.2e-06	28.9
WP_080939413.1|44170_44365_+	hypothetical protein	NA	NA	NA	NA
WP_045530922.1|44606_45209_-	hypothetical protein	NA	NA	NA	NA
WP_045530924.1|45551_45902_-	Lsr2 family protein	A0A160DF84	Gordonia_phage	7.6e-14	40.4
WP_045530928.1|46459_47083_-	recombinase family protein	A0A0A7NPV4	Enterobacteria_phage	2.9e-24	38.0

2. NZ_CP011043

CRISPR-Cas detection and classification

Crispr_ID: NZ_CP011043_1

• CRISPR_ID: NZ_CP011043_1
• CRISPR_location: 1052132-1052212
• CRISPR_type: Orphan
• Repeat_type: NA
• Spacer_info: 1 spacers
• Cas_protein_info: csa3

Consensus repeat of NZ_CP011043_1

Consensus_repeat	Method
GCCGCCGCCGGTGCCGGGGTTCGA	CRISPRCasFinder

spacers of NZ_CP011043_1

>1.1|1052156|33|NZ_CP011043|CRISPRCasFinder
CGTCCCGGGATCCGAGCCGCCGCCGCTGGAGCC

CRISPR arrays and Neighbor proteins around NZ_CP011043_1

CRISPR arrays

The CRISPR arrays of NZ_CP011043_1

>merge|NZ_CP011043|1|1052132-1052212|CRISPRCasFinder
GCCGCCGCCGGTGCCGGGGTTCGACGTCCCGGGATCCGAGCCGCCGCCGCTGGAGCCGCCGCCGCCGGTGCCGCCGCCGGT

>NZ_CP011043|1|1|1052132-1052212|CRISPRCasFinder
GCCGCCGCCGGTGCCGGGGTTCGA	CGTCCCGGGATCCGAGCCGCCGCCGCTGGAGCC
GCCGCCGCCGGTGCCGCCGCCGGT

Neighbor Proteins Overview

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP011043.1|WP_045527315.1|1055424_1056048_-|carboxylesterase	unknown	unknown	gnl|CDD|223477
NZ_CP011043.1|WP_045527321.1|1059245_1059716_-|winged-helix-DNA-binding-protein	unknown	unknown	gnl|CDD|197670
NZ_CP011043.1|WP_045527302.1|1047604_1048204_+|hypothetical-protein	unknown	unknown	unknown
NZ_CP011043.1|WP_045527308.1|1050381_1051245_-|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl|CDD|379312
NZ_CP011043.1|WP_045527300.1|1046840_1047407_-|GNAT-family-N-acetyltransferase	unknown	unknown	gnl|CDD|379112
NZ_CP011043.1|WP_045527310.1|1051292_1051913_+|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl|CDD|238045
NZ_CP011043.1|WP_045527297.1|1044750_1045377_-|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl|CDD|379409
NZ_CP011043.1|WP_045527293.1|1043852_1044206_-|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl|CDD|238042
NZ_CP011043.1|WP_045527317.1|1056044_1057022_-|ring-cleaving-dioxygenase	unknown	unknown	gnl|CDD|319935
NZ_CP011043.1|WP_045527295.1|1044316_1044754_+|low-molecular-weight-phosphatase-family-protein	unknown	unknown	gnl|CDD|223471
NZ_CP011043.1|WP_052663178.1|1058102_1059230_+|hypothetical-protein	unknown	unknown	gnl|CDD|378641
NZ_CP011043.1|WP_045527314.1|1053836_1055366_-|sodium:proton-antiporter	unknown	unknown	gnl|CDD|223104
NZ_CP011043.1|WP_045527299.1|1045454_1046771_+|carboxylesterase-family-protein	unknown	unknown	gnl|CDD|365897
NZ_CP011043.1|WP_015489932.1|1061073_1061343_+|hypothetical-protein	unknown	unknown	unknown
NZ_CP011043.1|WP_045527319.1|1057150_1057948_-|hypothetical-protein	unknown	unknown	gnl|CDD|377866
NZ_CP011043.1|WP_158385383.1|1053524_1053695_-|hypothetical-protein	unknown	unknown	unknown
NZ_CP011043.1|WP_045527325.1|1060527_1060968_-|DUF1801-domain-containing-protein	unknown	unknown	gnl|CDD|378058
NZ_CP011043.1|WP_045527323.1|1059712_1060468_-|alpha/beta-fold-hydrolase	unknown	unknown	gnl|CDD|131480
NZ_CP011043.1|WP_045527304.1|1048275_1048470_+|hypothetical-protein	unknown	unknown	unknown
NZ_CP011043.1|WP_045527306.1|1048560_1050321_-|DEAD/DEAH-box-helicase	unknown	unknown	gnl|CDD|236941

HMMScan for Signature genes

Protein	Cas_name	Cas_description	E-value	Identity	Coverage
NZ_CP011043.1|WP_045527293.1|1043852_1044206_-|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	2.5e-14	48.4	0.0

rpsblast for functional proteins

Protein	Function_ID	Function_description	E-value
NZ_CP011043.1|WP_045527315.1|1055424_1056048_-|carboxylesterase	gnl|CDD|223477	COG0400, COG0400, Predicted esterase [General function prediction only].	3.87705e-45
NZ_CP011043.1|WP_045527321.1|1059245_1059716_-|winged-helix-DNA-binding-protein	gnl|CDD|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	4.05855e-15
NZ_CP011043.1|WP_045527308.1|1050381_1051245_-|class-I-SAM-dependent-methyltransferase	gnl|CDD|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	1.97714e-14
NZ_CP011043.1|WP_045527300.1|1046840_1047407_-|GNAT-family-N-acetyltransferase	gnl|CDD|379112	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain. This domain catalyzes N-acetyltransferase reactions.	1.72311e-31
NZ_CP011043.1|WP_045527310.1|1051292_1051913_+|helix-turn-helix-transcriptional-regulator	gnl|CDD|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	6.94478e-14
NZ_CP011043.1|WP_045527314.1|1053836_1055366_-|sodium:proton-antiporter	gnl|CDD|223104	COG0025, NhaP, NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism].	1.49531e-61
NZ_CP011043.1|WP_045527293.1|1043852_1044206_-|winged-helix-turn-helix-transcriptional-regulator	gnl|CDD|238042	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.	2.08774e-17
NZ_CP011043.1|WP_045527317.1|1056044_1057022_-|ring-cleaving-dioxygenase	gnl|CDD|319935	cd08347, PcpA_C_like, C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. The C-terminal domain of Sphingobium chlorophenolicum (formerly Sphingomonas chlorophenolica) 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. PcpA is a key enzyme in the pentachlorophenol (PCP) degradation pathway, catalyzing the conversion of 2,6-dichloro-p-hydroquinone to 2-chloromaleylacetate. This domain belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.	9.34717e-64
NZ_CP011043.1|WP_045527295.1|1044316_1044754_+|low-molecular-weight-phosphatase-family-protein	gnl|CDD|223471	COG0394, Wzb, Protein-tyrosine-phosphatase [Signal transduction mechanisms].	2.06326e-27
NZ_CP011043.1|WP_045527297.1|1044750_1045377_-|TetR/AcrR-family-transcriptional-regulator	gnl|CDD|379409	pfam13977, TetR_C_6, BetI-type transcriptional repressor, C-terminal. This family comprises the C-terminal portion of proteins that belong to the TetR family of transcriptional regulators. The C-terminus represents the regulatory region, and does not include the DNA binding helix-turn-helix domain. The target proteins that are repressed are involved in the transcriptional control of multi-drug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. One of the target proteins is BetI, an osmoprotectant which controls the choline-glycine betaine pathway in E.coli.	1.51104e-08
NZ_CP011043.1|WP_045527299.1|1045454_1046771_+|carboxylesterase-family-protein	gnl|CDD|365897	pfam00135, COesterase, Carboxylesterase family.	1.25302e-77
NZ_CP011043.1|WP_052663178.1|1058102_1059230_+|hypothetical-protein	gnl|CDD|378641	pfam11335, DUF3137, Protein of unknown function (DUF3137). This bacterial family of proteins has no known function.	0.000892029
NZ_CP011043.1|WP_045527319.1|1057150_1057948_-|hypothetical-protein	gnl|CDD|377866	pfam07553, Lipoprotein_Ltp, Host cell surface-exposed lipoprotein. This is a family of lipoproteins that is involved in superinfection exclusion. Proteins in this family have been shown to act at the stage of DNA release from the phage head into the cell.	1.96669e-23
NZ_CP011043.1|WP_045527325.1|1060527_1060968_-|DUF1801-domain-containing-protein	gnl|CDD|378058	pfam08818, DUF1801, Domain of unknown function (DU1801). This large family of bacterial proteins is uncharacterized. They contain a presumed domain about 110 amino acids in length.	5.17137e-05
NZ_CP011043.1|WP_045527323.1|1059712_1060468_-|alpha/beta-fold-hydrolase	gnl|CDD|131480	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate. [Energy metabolism, Other].	6.04545e-16
NZ_CP011043.1|WP_045527306.1|1048560_1050321_-|DEAD/DEAH-box-helicase	gnl|CDD|236941	PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.	0

Protein sequences

>NZ_CP011043.1|WP_045527310.1|1051292_1051913_+|helix-turn-helix-transcriptional-regulator
MTQEPDVDALVRQRIRSLREARGWSLDALAARCFLSPSTLSRIETGHRRIALDQLVPIAQALETSLDALIESGDDADVVIRPQADSEAGRTMWILSRGGASGSGPFVAKMRMTPTRPVPVDRLGVHPGRDWFTVLSGTARLQLGERTILVEAGDAAEFSTMVPHAIGAHRGVVEILTILDRDGQRAHLRTTGTGPAARAGDDPTEA
>NZ_CP011043.1|WP_045527308.1|1050381_1051245_-|class-I-SAM-dependent-methyltransferase
MTHLHPAPGHGPADPSLARMLDLDARILHGHQRELTAWVRRLARDTAGRVVVDLGAGTGTGTVALARRVDRAVVHAVDASDAMLDRVAERAVVDGLADRIRTVRADLDAGWPALPPADLVWASLLLHEVADPARLLARIHDGLAPGGLLAVVEMDGPPRFLPDDLDPDLVRPGLADRLDDAVTHGGTGGPSHPDWAPWLRDAGLVDVATRVFRTDPDPADPIAAAATLPYARTWLARVRDRAVDRLDADDRAALDALLDDGGPHALARIPDLGLRGTRTAYVGRRPR
>NZ_CP011043.1|WP_045527306.1|1048560_1050321_-|DEAD/DEAH-box-helicase
MSTDDTASTPDADAAPRTTFSDLGLSDQVLKALKDVGYETPSAIQAATIPSLLSGRDVLGVAQTGTGKTAAFALPILSNLDVSQKTPQALVLAPTRELALQVCEAFERYASGMRGVHVLPVYGGQGYGVQLSALRRGVHVVVGTPGRIMDHLDKGTLDLSQLKFLVLDEADEMLKMGFAEDVETILADTPKSKQIALFSATMPAQIRRISGKYLQDPEEITVKNKTTTSANTTQRYLMVSYPQKVDALTRILETENFEGMIVFVRTKNETETLAEKLRARGYAAAAISGDVAQAQRERTVEQLKSGKLDILVATDVAARGLDVDRISHVVNYDIPIDTESYVHRIGRTGRAGRSGAAISFVTPRERRLLTAIEKATRQPLAEMRMPSAEDVNVTRLSRFDDAITAALADRERLDAFRDIVGHYVNHHDVVESDVAAALAIVAQGDTPLLLSADDLRPPRVERERRDDRPSRDGDDRGERRARPARGSGNMATYRIDVGRRHRVEPRQIVGALANEGGFSREDFGHIDIRPDFSLVELPAGLPQDRIDRLASTVINGRPIDIRPDRGGPRAAERGAAPERRGRKPRD
>NZ_CP011043.1|WP_045527304.1|1048275_1048470_+|hypothetical-protein
MSARHRLLFVSTLVITSGLVLVGILLLATSGFMDMRGSALCIVAALIGITYASVITAQRRRPRR
>NZ_CP011043.1|WP_045527302.1|1047604_1048204_+|hypothetical-protein
MKVNRRLIAMAASHSDNQRHYGTRVTAAQIAAADAAVTQVRAFQSTVTAVDGDIHFDAARALALGARPETVREVATGIVAAGGTVSGVSVDASAVRVARDAVQLSSCVGVNDSSTQWFGHQLKLDSCNTSRLIGALAVGAGAAGIAALITAWTGAGPVVAGVIAGALTIGGGAIAICAADGDGLILDQGWNGVPWCSGQ
>NZ_CP011043.1|WP_045527300.1|1046840_1047407_-|GNAT-family-N-acetyltransferase
MDPVTLRTPRLTLRRPVLDDVDGITSACQDPQVQRYVPVPVPYTREDAVSYVSEFCADGWASGERLTWVALEGGDLVGTVGLHGIADGGAEIGYWLAPAARGRGIMREAAAAVVDHGFDASAGLGLVRIGWRAYAGNTGSAAVARALGFRFEGVARLGAMGRAGREDDWLAALLATDDRTPEPWPVLA
>NZ_CP011043.1|WP_045527299.1|1045454_1046771_+|carboxylesterase-family-protein
MCAFSPPCGPVVGWVDGDVVRATGIPYATAARFAPPVTHPDWTQPRDATDWAPGCPQPPMEELDAVLGDFSRLPVDEDCLRVSVTMPRDVRPDDALPVMVWIHGGSYVSGAGDMPIMDPAALVTEQRVVVVTVTYRLGLLGYLGDGRDRPANLGLLDQLAALRWVARNIRAFGGDPDRVTAFGQSAGGDAVAHLLAVPEAAGLFCRAIIQSAPLGIARGRRRMNAAMARASRGLTTDMPVEEVLARQAGVERAAAPYGLLGSMPFGTQYGHAPLPPESGIDAAWDASAPRVDVLIGNTAEEARPFLPRIPWLVQLTGLPVVGPLLRGATVASVSGIIYGIPARRFARRHARAGGTAHRYVIRWSAPGSPFGAAHTVDLPLLFGDEDAWRGAGLLAGADWEGIQRDARRVRQVWGDFARGRIPTRQLIPGVLELRRVRG
>NZ_CP011043.1|WP_045527297.1|1044750_1045377_-|TetR/AcrR-family-transcriptional-regulator
MPRLIDHARREDELAEAVWRVIRREGASGVSVRTVAAEAGLSTGSLRHSFPSRIDLVAHATELVARRIDARIRTRRADPDARRRAVRILAEHLPLDDARRAEAEVTAALLADAASHPRLREVRAAAHAAARETCLEQLAQLRAAGLLRPDADPDAEADHLQALLAGLALQLLVDEPDAARSARALGVLERHIDALVARRVERRASVDA
>NZ_CP011043.1|WP_045527295.1|1044316_1044754_+|low-molecular-weight-phosphatase-family-protein
MAERIPHVVFVCARNGGKSQLAAALMRNAAGDAVAVTSAGTDPGTSLNALAVESLTELGIDVAGESPKPLTDDMVREADLVVVLGAEAHVDGDQDVAVETWITDEPSERGIDGMERMRLVRDDIRARVEELRGRLGGVAGGPAAR
>NZ_CP011043.1|WP_045527293.1|1043852_1044206_-|winged-helix-turn-helix-transcriptional-regulator
MPTLAPRLDVMTRLGRALADPTRARILMELLDGPAYPALLAESLGFTRQNVSNHLACLRGCGIVRTVPEGRSTRYEIQDARIARGLGALVEVVLAVDDDRACADPALCDPGCCEAGA
>NZ_CP011043.1|WP_158385383.1|1053524_1053695_-|hypothetical-protein
MSVSPTTAPVRPVAAVDGAPRPGDPACVAFVGSADGVRLAGTRGFAVDLVPLSPRP
>NZ_CP011043.1|WP_045527314.1|1053836_1055366_-|sodium:proton-antiporter
MPEIIAWVASFVVVTVAVSGLAGRVGWSAPVALVAVGAALSFVPGVPQIVIEPDAVLYGLLPPLLFAAAIRTPLADIRARRDSIVVLSVGVVVVTLVVFGLTLWALVPAVGLAAALALGAVVAPTDAVAVSAVAGRVKLPRRVMSILETESLLNDATALVALNTAIAAIVGAVHPVDVAGGFLVAVVAGVAIGLAVAFLFSAVRRFLRSAVLDTSLSLAIPYVAFIPAQEIGGSGVLAVVAAGLVLGYRSPLIQSPEARIAESVNWRTIQFLLENAVFLLIGLSLAGILRDLPESSLDGWQIAGLAILLLAVLTAARFVSVALAKVLFDHGPARLRARTWTWRTVTAVSSAGVRGVVTLAAAFLLPAETPERELLQFLAFVMVAGTLLGGLALPAIIRRLRLGHSADDQERSDRDRLLDEAREAGLAARAVAIREHGASDGPGDDALPETTTERLAHDRVRRRMIDAERVAVLAARREGRYPEIAVRAVLGMIDAEDVALGRREADDAR
>NZ_CP011043.1|WP_045527315.1|1055424_1056048_-|carboxylesterase
MSALLDATPHEFRPGADTGPVVLGLHGTGADERQGLELARLLAPGQPVLAPRGSVREGSAARWFRRHAEGVFDVDDVVARAAELADLVAEARSAYALGDREILAVGFSNGANMALATTLLHPSALPATIAFSARWPLGDREPAADLSGTRITLLNGDADAMAPLVDVERTVREALARGADVSSHVRPGGHGLDARDLDAARARTRTG
>NZ_CP011043.1|WP_045527317.1|1056044_1057022_-|ring-cleaving-dioxygenase
MTASTQGLHHVTAIGGDPQRNVDFYVRAMGLRLVKRTVNFDSPGSYHLYYGDTEGRPGSLLTFFPWKGVPAGRVGAGQSTTTAFSVPAGSLGWWAEHLRQVGVASSISSTGSEEERLSLRDPDGLQIDLVASSVVDPRAPWDSADVPAEHAIRGQHSSVLTVRDPAGTASVLTDDLGLRLVDERDGRFRFAAGDGGPGAIVDLVADPGAQQGLTAGGTVHHVAFRVPGRVEQQAWRDELVDRGHQVTQILDRQYFTSIYFREPGGVLFEIATDTPGFDIDEPLLELGRSLRLPPWLEPSRADIEAAVPPLRLPDDEAAAADGSAA
>NZ_CP011043.1|WP_045527319.1|1057150_1057948_-|hypothetical-protein
MTAPEQPGYPSPDPHQPPPPSPYGPPAPAGTATPPPPPYGVRPKGLAIAALVVGIVAFLSGLVPVFGLIAGAAAVVLGILALRRQQSKGMAITGLSLGAVAAVTSLFVTIAFAAAVSTSSTSTGTAEVVESSAEAEALPTPTPEASEPAAEETTAAAEPAAPAVPAESATALIKAETYANGLDMSKAGLYDQLTSEYGEQFTPEAAQYAVDNVQADWNANALAKAKTYREMAAMSPAAIRDQLTSEYGEKFTAEEADYAIAHLDD
>NZ_CP011043.1|WP_052663178.1|1058102_1059230_+|hypothetical-protein
MDLRWLSAPDDEVAAAMRTVRRSARPSWVPSRRKVLAHVNDSLILWYVCVVLLYWGVVTDGAGDGAVTPATIAGLAGAAVVLAVWLLGSRLLHRWAARPPSPRARGREWRQHLTALANGFQPQPSGGRTFRALITEDAGGVLVVPRFRAAGVEFGDVVRKRARRSGWTYVAVTLPVPLPHLLLDATGDDARGGDLPASVRRGQRLSLEGDFDRQFRLYAPAEYERDALYLLTPDVMAALVDDAAGFDVEMVDDTLVFFRRELADFAEPAPWEATGRILDGVAARIRRRAVRYRDERVLLGDGGGAAPLRADLDEQPPDPRAPRIAADGRRLDIRDRRTGCLGAVGWFAWIAFRASLIFVPAVFAFAGFMSIVDGR
>NZ_CP011043.1|WP_045527321.1|1059245_1059716_-|winged-helix-DNA-binding-protein
MRPAEELRYLILGAQREGARAYAAALAPTGLTPAQAEAVVVLAEAPGISLAGLGARLVCEAGSPSRLVDALVRQGLVHRDPDPRSRRSVVLRLTAEGQRRVADVRAAEATVHDAIGGALDARQLEAAIGALRLLLDRRPTLDALTLRRADRASTTS
>NZ_CP011043.1|WP_045527323.1|1059712_1060468_-|alpha/beta-fold-hydrolase
MSSIASPPTLVGVPCFSGAPWDFRPLRALAAYPLRTLALPHDARSVEEAADAVEDLVRDLPRYVLVGDSFGAVVSLALALRRPAGLAGLVLSGGFAADPTPAWKTRAASLARHVPRVLYEQGILRFHAAQLASRSDAAAPHPLTRRDYRELFRIHTPASAYANRVGAVVGFDVRARIHRIDVPTLLMTPEDDRLVGPTAAAALRDGLPHAREMVLPGTGHMLRFTHPGEYADAVDGFVRSEVGLGVAAGAA
>NZ_CP011043.1|WP_045527325.1|1060527_1060968_-|DUF1801-domain-containing-protein
MTDSGFSKDEREAMKQRARELREEAKAQKAADKQAAALQGVLDAFAAMPPEERAIAEWLHGIVLEHAPDLAPKTWYGFPAYADADGKPVVFFQPGSKFGTRYSTLGFQDPAQLDEGTMWPTSYALTAVDPANEERVAELVRRAVGG
>NZ_CP011043.1|WP_015489932.1|1061073_1061343_+|hypothetical-protein
MSTHEQDQPIMDGAGEATADEKRAGLAEQVAYDHRDSGSEAMAADLDRRTEDAGLGEGPADPAATQATSTGSDGIEGEADAEVDGPHPA

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP011043_1	1.1|1052156|33|NZ_CP011043|CRISPRCasFinder	1052156-1052188	33	MK878901	Gordonia phage HannahD, complete genome	11841-11873	9	0.727
NZ_CP011043_1	1.1|1052156|33|NZ_CP011043|CRISPRCasFinder	1052156-1052188	33	MH479915	Gordonia phage GEazy, complete genome	11841-11873	9	0.727
NZ_CP011043_1	1.1|1052156|33|NZ_CP011043|CRISPRCasFinder	1052156-1052188	33	NC_016585	Azospirillum lipoferum 4B plasmid AZO_p1, complete sequence	198680-198712	10	0.697

1. spacer 1.1|1052156|33|NZ_CP011043|CRISPRCasFinder matches to MK878901 (Gordonia phage HannahD, complete genome) position: , mismatch: 9, identity: 0.727

cgtcccgggatccgagccgccgccgctggagcc	CRISPR spacer
ggcgaacggatccgagccgcccccgccggaggc	Protospacer
 *.    ************** ****.**** *

2. spacer 1.1|1052156|33|NZ_CP011043|CRISPRCasFinder matches to MH479915 (Gordonia phage GEazy, complete genome) position: , mismatch: 9, identity: 0.727

cgtcccgggatccgagccgccgccgctggagcc	CRISPR spacer
ggcgaacggatccgagccgcccccgccggaggc	Protospacer
 *.    ************** ****.**** *

3. spacer 1.1|1052156|33|NZ_CP011043|CRISPRCasFinder matches to NC_016585 (Azospirillum lipoferum 4B plasmid AZO_p1, complete sequence) position: , mismatch: 10, identity: 0.697

cgtcccgggatccgagccgccgccgctggagcc	CRISPR spacer
cacgtcggaatccgagccgacgccgctgggcgt	Protospacer
*.. .***.********** *********.  .