CRISPRimmunity

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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_CP012883	Klebsiella pneumoniae KP-1 chromosome, complete genome	2 crisprs	DinG,DEDDh,csa3,cas3,WYL	0	2	6	0
NZ_CP012884	Klebsiella pneumoniae KP-1 plasmid pKP1-19, complete sequence	0 crisprs	csa3	0	0	1	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP012883_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP012883_1

3410655-3410740

Orphan

Consensus_repeat	Method
AATAAAAACCATAAAAACCACAGT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP012883_1

>merge|NZ_CP012883|1|3410655-3410740|CRISPRCasFinder
AATAAAAACCATAAAAACCACAGTCATAAATCAGAGATATATCACTCCCGGGCAGTTCAGCGAATAAAAACCATAAAAACCATAGT

>NZ_CP012883|1|1|3410655-3410740|CRISPRCasFinder
AATAAAAACCATAAAAACCACAGT	CATAAATCAGAGATATATCACTCCCGGGCAGTTCAGCG
AATAAAAACCATAAAAACCATAGT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP012883.1\|WP_021441192.1\|3420106_3421609_-\|L-arabinose-isomerase	unknown	unknown	gnl\|CDD\|179503
NZ_CP012883.1\|WP_002888320.1\|3399628_3400108_+\|type-3-dihydrofolate-reductase	unknown	unknown	gnl\|CDD\|182714
NZ_CP012883.1\|WP_021441189.1\|3412381_3412921_+\|citrate-lyase-holo-[acyl-carrier-protein]-synthase	unknown	unknown	gnl\|CDD\|163145
NZ_CP012883.1\|WP_002888321.1\|3400360_3401209_-\|bis(5'-nucleosyl)-tetraphosphatase-(symmetrical)-ApaH	unknown	unknown	gnl\|CDD\|273208
NZ_CP012883.1\|WP_002888353.1\|3419273_3419969_-\|L-ribulose-5-phosphate-4-epimerase	unknown	unknown	gnl\|CDD\|236181
NZ_CP012883.1\|WP_002888332.1\|3407339_3408167_+\|co-chaperone-DjlA	unknown	unknown	gnl\|CDD\|236512
NZ_CP012883.1\|WP_002888337.1\|3408199_3408898_-\|response-regulator	unknown	unknown	gnl\|CDD\|226931
NZ_CP012883.1\|WP_002888329.1\|3403406_3404693_-\|peptidylprolyl-isomerase-SurA	unknown	unknown	gnl\|CDD\|236758
NZ_CP012883.1\|WP_002888324.1\|3401593_3402415_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NZ_CP012883.1\|WP_004192048.1\|3408887_3410513_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|225827
NZ_CP012883.1\|WP_032428530.1\|3413655_3416562_-\|RNA-polymerase-associated-protein-RapA	unknown	unknown	gnl\|CDD\|235319
NZ_CP012883.1\|WP_004145972.1\|3423666_3424512_+\|arabinose-operon-transcriptional-regulator-AraC	unknown	unknown	gnl\|CDD\|236717
NZ_CP012883.1\|WP_002888348.1\|3412983_3413643_-\|bifunctional-tRNA-pseudouridine(32)-synthase/23S-rRNA-pseudouridine(746)-synthase-RluA	unknown	unknown	gnl\|CDD\|236659
NZ_CP012883.1\|WP_002888323.1\|3401213_3401591_-\|Co2+/Mg2+-efflux-protein-ApaG	unknown	unknown	gnl\|CDD\|180098
NZ_CP012883.1\|WP_032103829.1\|3404747_3407096_-\|LPS-assembly-protein-LptD	unknown	unknown	gnl\|CDD\|235158
NZ_CP012883.1\|WP_002888327.1\|3402411_3403401_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|234696
NZ_CP012883.1\|WP_023279864.1\|3421619_3423329_-\|ribulokinase	unknown	unknown	gnl\|CDD\|235221
NZ_CP012883.1\|WP_002888373.1\|3424640_3425408_+\|DedA-family-protein	unknown	unknown	gnl\|CDD\|223659
NZ_CP012883.1\|WP_060553433.1\|3416749_3419107_-\|DNA-polymerase-II	unknown	unknown	gnl\|CDD\|235595
NZ_CP012883.1\|WP_002888345.1\|3410837_3412202_+\|2-hydroxycarboxylate-transporter-family-protein	unknown	unknown	gnl\|CDD\|377030

Protein	Function_ID	Function_description	E-value
NZ_CP012883.1\|WP_021441192.1\|3420106_3421609_-\|L-arabinose-isomerase	gnl\|CDD\|179503	PRK02929, PRK02929, L-arabinose isomerase; Provisional.	0
NZ_CP012883.1\|WP_002888320.1\|3399628_3400108_+\|type-3-dihydrofolate-reductase	gnl\|CDD\|182714	PRK10769, folA, type 3 dihydrofolate reductase.	1.71656e-127
NZ_CP012883.1\|WP_021441189.1\|3412381_3412921_+\|citrate-lyase-holo-[acyl-carrier-protein]-synthase	gnl\|CDD\|163145	TIGR03124, citrate_citX, holo-ACP synthase CitX. Members of this protein family are the CitX protein, or CitX domain of the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems. [Energy metabolism, Fermentation, Protein fate, Protein modification and repair].	6.20047e-83
NZ_CP012883.1\|WP_002888321.1\|3400360_3401209_-\|bis(5'-nucleosyl)-tetraphosphatase-(symmetrical)-ApaH	gnl\|CDD\|273208	TIGR00668, Bis5'-nucleosyl-tetraphosphatase_symmetrical, bis(5'-nucleosyl)-tetraphosphatase (symmetrical). Diadenosine 5',5"'-P1,P4-tetraphosphate (Ap4A) is a regulatory metabolite of stress conditions. It is hydrolyzed to two ADP by this enzyme. Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase. [Cellular processes, Adaptations to atypical conditions].	0
NZ_CP012883.1\|WP_002888353.1\|3419273_3419969_-\|L-ribulose-5-phosphate-4-epimerase	gnl\|CDD\|236181	PRK08193, araD, L-ribulose-5-phosphate 4-epimerase AraD.	0
NZ_CP012883.1\|WP_002888332.1\|3407339_3408167_+\|co-chaperone-DjlA	gnl\|CDD\|236512	PRK09430, djlA, co-chaperone DjlA.	2.63694e-164
NZ_CP012883.1\|WP_002888337.1\|3408199_3408898_-\|response-regulator	gnl\|CDD\|226931	COG4565, CitB, Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms].	5.03078e-66
NZ_CP012883.1\|WP_002888329.1\|3403406_3404693_-\|peptidylprolyl-isomerase-SurA	gnl\|CDD\|236758	PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA; Provisional.	0
NZ_CP012883.1\|WP_002888324.1\|3401593_3402415_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	3.65731e-147
NZ_CP012883.1\|WP_004192048.1\|3408887_3410513_-\|sensor-histidine-kinase	gnl\|CDD\|225827	COG3290, CitA, Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms].	7.63459e-173
NZ_CP012883.1\|WP_032428530.1\|3413655_3416562_-\|RNA-polymerase-associated-protein-RapA	gnl\|CDD\|235319	PRK04914, PRK04914, RNA polymerase-associated protein RapA.	0
NZ_CP012883.1\|WP_004145972.1\|3423666_3424512_+\|arabinose-operon-transcriptional-regulator-AraC	gnl\|CDD\|236717	PRK10572, PRK10572, arabinose operon transcriptional regulator AraC.	0
NZ_CP012883.1\|WP_002888348.1\|3412983_3413643_-\|bifunctional-tRNA-pseudouridine(32)-synthase/23S-rRNA-pseudouridine(746)-synthase-RluA	gnl\|CDD\|236659	PRK10158, PRK10158, bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA.	2.4454e-161
NZ_CP012883.1\|WP_002888323.1\|3401213_3401591_-\|Co2+/Mg2+-efflux-protein-ApaG	gnl\|CDD\|180098	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed.	7.84855e-74
NZ_CP012883.1\|WP_032103829.1\|3404747_3407096_-\|LPS-assembly-protein-LptD	gnl\|CDD\|235158	PRK03761, PRK03761, LPS assembly outer membrane complex protein LptD; Provisional.	0
NZ_CP012883.1\|WP_002888327.1\|3402411_3403401_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|234696	PRK00232, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed.	0
NZ_CP012883.1\|WP_023279864.1\|3421619_3423329_-\|ribulokinase	gnl\|CDD\|235221	PRK04123, PRK04123, ribulokinase; Provisional.	0
NZ_CP012883.1\|WP_002888373.1\|3424640_3425408_+\|DedA-family-protein	gnl\|CDD\|223659	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown].	1.35562e-48
NZ_CP012883.1\|WP_060553433.1\|3416749_3419107_-\|DNA-polymerase-II	gnl\|CDD\|235595	PRK05762, PRK05762, DNA polymerase II; Reviewed.	0
NZ_CP012883.1\|WP_002888345.1\|3410837_3412202_+\|2-hydroxycarboxylate-transporter-family-protein	gnl\|CDD\|377030	pfam03390, 2HCT, 2-hydroxycarboxylate transporter family. The 2-hydroxycarboxylate transporter family is a family of secondary transporters found exclusively in the bacterial kingdom. They function in the metabolism of the di- and tricarboxylates malate and citrate, mostly in fermentative pathways involving decarboxylation of malate or oxaloacetate.	4.87969e-169

>NZ_CP012883.1|WP_004192048.1|3408887_3410513_-|sensor-histidine-kinase
MKLSFQYKLFISLVAFFSVLFIALGIYYYFDASRQLYQEMSARAKIQAEEIALMPNLRQQVSRHDPQAIQAFMQQIAAHSDASFIVIGDRQGVHLFHSVHPEWVGTRLVGGDNQAVLEGKSITTIRKGGLGVSLRSKTPIVDDAGRVIGIVSVGYLTSYLDSITLTKVINIFIAAVLLLIALFIFSWYFTRSIKKQIFSLEPREIGLLVRQQKAMMESIFEGVIVIDRQRRIEVINHAARSLLGLSQPARQLRGQSIDSVISPQPFFASGDMLERDTHDELCRFNQLTVLASRVRIMLENTLQGWVITFRDRNEINALTAQLSQVKRYVDNLRIMRHEQLNRMTTLSGLLHMGHYDEAIRYIQAQSEHAQELLDFISSHFHSPTLCGLLLGKATRAREKGVALSFDPACRIDRPLPSLMESELISIIGNLLDNAIEATQRAELPHEPVEVLIQLNARELIIEVADRGVGIRPDIRERIFERGVTTKTRGDHGIGLYLIEHYVTQAGGTIEVADNAPRGTIFTLFIPADAHACPQPEVHDAS
>NZ_CP012883.1|WP_002888337.1|3408199_3408898_-|response-regulator
MHHDLVDVLIIEDESELARLHAELVQKHPRLRLAGMAASLAQARQLLHATPPQLVLLDNYLPDGKGVTLMTDPALATSQCSVIFITAASDMETCSQAIRNGAFDYILKPVSWKRLSQSLERFIQFYDQQREWKIVDQQNVDSLYQLQAKNYRVDSGSKGIEEKTLALVQGLFSDREAHCFSVDEVVSAAGLSKTTARRYLEHGVETGFLEVEMLYGKIGHPRRLYRRAKVKS
>NZ_CP012883.1|WP_002888332.1|3407339_3408167_+|co-chaperone-DjlA
MQYLGKVIGVAVALLMGGGFWGVVLGFLVGHMFDRARSRRLNLFANQQERQSLFFSTTFEVMGHLTKSKGRVTEADIHVANVLMDRMNLHGASRTAAQQAFRDGKADNYPLREKMRQLRSVCFGRFDLIRMFLEIQLQAAFADGELHPNEREVLFVIADELGISRAQFDQFLRMMQGGAQFGGGSQQRSYGQHGGNAGWQQAQRGPTLEDACNVLGVKPTDDAATVKRAYRKLMNEHHPDKLVAKGLPPEMMEMAKQKAQEIQKAWELIKEQRGF
>NZ_CP012883.1|WP_032103829.1|3404747_3407096_-|LPS-assembly-protein-LptD
MKKRIPSLLATMIASALYSQQGLAADLATQCMLGVPSYDRPLVEGRPGDLPVTINADHAKGNYPDNAVFTGNVDINQGNSRLRADEVQLHQQQAAGQAQPVRTVDALGNVHYDDNQVILKGPKAWSNLNTKDTNVWQGDYQMVGRQGRGTADLMKQRGENRYTILENGSFTSCLPGSNTWSVVGSEVIHDREEQVAEIWNARFKLGSVPIFYSPYLQLPVGDKRRSGFLIPNAKYSTKNGVEFSLPYYWNIAPNFDATITPHYMNKRGGVMWENEFRYLTQLGSGLTEFDYLPSDKVYEDDHSSDSNSRRWLFYWNHSGVIDQVWRLNADYTKVSDPDYFNDFSSKYGSSTDGYATQKFSAGYVNQNFDATVSTKQFQVFDRESSNSYSAEPQLDVNYYQNDVGPFDTHLYGQVAHFVNSNNNMPEATRVHFEPTINLPLSNGWGSLNTEAKLLATHYQQSNLDKYNAANGTDYKESVSRVMPQFKVDGKMVFERDLQEGFTQTLEPRVQYLYVPYRDQSEIGNYDSTLLQSDYTGLFRDRTYSGLDRIASANQVTTGLTSRVYDAAAVERFNISVGQIYYFTESRTGDDNINWENNDTTGSLVWAGDTYWRIADEWGLRGGIQYDTRLDNVATGNGTIEYRRDENRLVQLNYRYASPEYIQATLPSYSTAAQYKQGISQVGMTASWPIVDRWSVVGAYYYDTNTRKAANQMLGVQYNSCCYAIRLGYERKVNGWNSNDNGGESKYDNTFGINIELRGLSSNYGLGTQQMLRSNILPYQSSL
>NZ_CP012883.1|WP_002888329.1|3403406_3404693_-|peptidylprolyl-isomerase-SurA
MKNWKTLLLGIAMIANTSFAAPQVVDKVAAVVNNGVVLESDVDGLMQSVKLNAGQAGQQLPDDATLRHQILERLIMDQIVLQMGQKMGVKISDDQLDQAIANIAKQNNMTLDQMRSRLAYEGINYNTYRNQIRKEMLISEVRNNEVRRRITVLPQEVEALAKQIGDQNDASTELNLSHILIPLPENPTSDEVAAAQEQANSIVEQARNGANFGKLAITYSADQQALKGGQMGWGRIQELPGIFAQALSTAKKGDIVGPIRSGVGFHILKVNDLRGGTQNISVTEVHARHILLKPSPIMNDAQAQAKLEQIAAEIKSGKITFAQAAKTYSEDPGSANQGGDLGWATPDIFDPAFRDALMRLNKGQTSGPVHSSFGWHLIELLDSRQVDRTDAAQKDRAYRMLMNRKFSEEAATWMQEQRASAYVKILSN
>NZ_CP012883.1|WP_002888327.1|3402411_3403401_-|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MPETRKVVITPGEPAGIGPDLVVQLAQRDWPVELVICADGALLTDRAKRLGLPLSLLPYDPAQPPVPQRAGTLTLLNVPLNVPAEPGVLNVQNGAYVVETLARACDGCLSGEFAALVTGPVHKGNINDAGIAFTGHTEFFEERAKASKVVMMLATEELRVALVTTHLPLKAISEAITPELLREIITILDHDLRTKFGIAQPHVLVCGLNPHAGEGGHMGTEEIDTIIPVLEEMRAKGMNLSGPLPADTLFQPKYLDHADAVLAMYHDQGLPVLKYQGFGRGVNITLGLPFIRTSVDHGTALELAGQGKADVGSFITALNLAIKMIVNTQ
>NZ_CP012883.1|WP_002888324.1|3401593_3402415_-|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MNNRVHQGHLARKRFGQNFLNDQFVIDSIVSAINPQKGQAMVEIGPGLAALTEPVGERLDQLTVIELDRDLAARLQTHPFLGPKLTIYQQDAMTMNFGELAEKMGQPLRVFGNLPYNISTPLMFHLFSYTDAIADMHFMLQKEVVNRLVAGPNSKAYGRLSVMAQYYCQVIPVLEVPPSAFTPPPKVDSAVVRLVPHSTMPYPVKEIRVLSRITTEAFNQRRKTIRNSLGNLFSVEVLTELGIDPAMRAENISVAQYCLMANWLSDNLPTKES
>NZ_CP012883.1|WP_002888323.1|3401213_3401591_-|Co2+/Mg2+-efflux-protein-ApaG
MIHSPRVCVQVQSVYIESQSSPEEERYVFAYTVTIRNLGRSQVQLLGRYWLITNGHGRETEVQGEGVVGEQPHIPAGGEYQYTSGAVIETPLGTMQGHYEMIDIDGAPFRIEIPVFRLAVPTLIH
>NZ_CP012883.1|WP_002888321.1|3400360_3401209_-|bis(5'-nucleosyl)-tetraphosphatase-(symmetrical)-ApaH
MSTYLIGDVHGCYDELIALLAQVEFDPRRDTLWLTGDLVARGPGSLEVLRYVKSLGDSVRLVLGNHDLHLLAVFAGISRNKPKDRLKPLLEAPDADELLNWLRRQPLLQVDEEKKLVMAHAGITPQWDLETAQQCARDVEAVLSSDSYPFFLDAMYGDMPNHWSNELSGLARLRFISNAFTRMRYCFPNGQLDMYSKEAPEDAPAPLKPWFAIPGPVSNAYSIAFGHWASLEGRGTPEGIYALDTGCCWGGELTCLRWEDKQYFTQPSNRQKSLDEGEAVAS
>NZ_CP012883.1|WP_002888320.1|3399628_3400108_+|type-3-dihydrofolate-reductase
MISLIAALAVDRVIGMENAMPWNLPADLAWFKRNTLNKPVVMGRLTWESIGRPLPGRKNIVISSKPGSDDRVQWVSSVEEAIAACGDVEEIMVIGGGRVYEQFLPKAQKLYLTHIDAEVEGDTHFPDYDPDEWESVFSEFHDADAQNSHSYCFEILERR
>NZ_CP012883.1|WP_002888345.1|3410837_3412202_+|2-hydroxycarboxylate-transporter-family-protein
MSTTDNAFSATLEPIDTPKTTLKQRWWHIMDNWKVGIVPLPLFLLAGGLIALDCLGGKLPSDIVVMVATLAFFGFACGEFGKRLPVLGKLGAAAICATFIPSALVHYGLLPDVVIESTTKFYKSTNILYLYICCIIVGSIMSMNRTTLIQGFLKIFFPMLCGEVVGMLVGIGVGTLLGMEPFQVFFFIVLPIMAGGVGEGAIPLSMGYAALMHMEQGVALGRVLPMVMLGSLTAIVISGCLNQLGKRFPHLTGEGQLMPNRSHETRSLSESEGVSGKTDVGTLASGALLAVLLYMMGMLGHKLIGLPAPVGMLFLAVLLKLANVVSPRLQEGSQMVYKFFRTAVTYPILFAVGVAITPWQELVNAFTLTNLLVIVSTVSALVATGFLVGKKIGMHPIDVAIVSCCQSGQGGTGDVAILTAGNRMSLMPFAQIATRIGGAINVSLGLLFLSHYLA
>NZ_CP012883.1|WP_021441189.1|3412381_3412921_+|citrate-lyase-holo-[acyl-carrier-protein]-synthase
MSVDTPAQAGVSIDALLAAKEQRAARQADWLAHYQQPVISLTLVTPGAVKDSIRYRNMMGVALQACDQLLWKHRWQTLDRQVLWLPTGPEALWCVAHPASEIKAMCSTLEQSHPLGRLWDIDVICPQAGLISRQAQGEAMRRCLLCDEPAHACARSRRHDTGLVVARVEQMIDAWFARD
>NZ_CP012883.1|WP_002888348.1|3412983_3413643_-|bifunctional-tRNA-pseudouridine(32)-synthase/23S-rRNA-pseudouridine(746)-synthase-RluA
MAMENYNPPQDPWLVILYQDEHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDFPQAESVHRLDMATSGVIVVALNKAAERELKRQFREREPKKQYVARVWGHPQPAEGLVDLPLICDWPNRPKQKVCYETGKAAQTEYEVLEYAEDNTARVRLKPITGRSHQLRVHMLALGHPILGDRFYATPEALAMAPRLLLHAETLTITHPAYGNAMTFRAPIDF
>NZ_CP012883.1|WP_032428530.1|3413655_3416562_-|RNA-polymerase-associated-protein-RapA
MPFTLGQRWISDTESELGLGTVVALDARMVTLLFPAIGENRLYSRNDSPITRVMFNPGDTITSHEGWQLHVDKVNEENGLLSYTGTRLDTQEANVTLREVLLDSKLVFSKPQDRLFAGQIDRMDRFALRYRARKFQSEQYRMPWSGLRGQRTSLIPHQLHIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIVVPETLQHQWLVEMLRRFNLRFSLFDDERYAEAQHDAYNPFETEQLVICSLDFVRRSKQRLEHLCDAEWDLMVVDEAHHLVWSEEAPSREYQAIEQLAERVPGILLLTATPEQLGMESHFARLRLLDPNRFHDFEQFVEEQQNYRPVADAVALLLAGNKLSDSELNTLGDLIGEQDIEPLLQAANSDREDAQAARQELISMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIRLPLPTQYQTAIKVSGIMGARKTAEERARDMLYPEQIYQEFEGDTGTWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASNLVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDAFEHTCPTGRTVYDSVHDELINYLAAPESTDGFDDLIKSCRQQHDALKAQLEQGRDRLLEIHSNGGEKAQALAESIEEQDDDTSLIAFSMNLFDIVGINQDDRGENLIVLTPSDHMLVPDFPGLPEDGCTITFERDVALSREDAQFITWEHPLIRNGLDLILSGDTGSSTISLLKNKALPVGTLLLELIYVVEAQAPKQLQLNRFLPATPVRMLLDKNGNNLAAQVEFESFNRQLSAVNRHTGSKLVNAVQQDVHAILQQGEAQIAKAAQGLIDAARNEADEKLTAELSRLEALKAVNPNIRDDELAAIESKRQQVMDALAQAGWRLDALRLIVVTHQ
>NZ_CP012883.1|WP_060553433.1|3416749_3419107_-|DNA-polymerase-II
MTQPRAGFLLTRHWRDTPQGTELSFWLATDDGPLQVTPPPQESVAFIPEAQRAQAERLLQGEKGLRFAPLALKDFHRQPIVGLYCRAHRQLMRLEKMLRDSGVTVYEGDIRPPERYLMERFITAPVWVEGETRGSQLVNARMKPNPDYRPPLKWVSLDIETSRHGELYCIGLEGCGQRVVYMLGPEPETPPDVDFELVFIASRPLLLEKLNAWFAEHDPDVLIGWNVVQFDLRVLQKHAERYRIPLRLGRGNSELEWREHGFKNGVFFAQANGRLIIDGIDALKSAFWNFSSFSLEAVARELLGEGKAIDNPWDRMDEIDRRFHEDKPALAIYNLQDCELVTRIFHKTEIMPFLLERATVNGLPADRHGGSVAAFSHLYFPRMHRLGYVAPNLGDVPPQASPGGYVMDSRPGLYDSVLVLDYKSLYPSIIRTFLIDPVGLVEGLAQPDDQHSIEGFLGARFSRDKHCLPGIVSQIWHGRDEAKRQHNKPLSQALKIIMNAFYGVLGTSACRFFDPRLASSITMRGHAIMRQTKALIEAKGYDVIYGDTDSTFVWLKRPHSEAQAAEIGRELVSDVNAWWSQELSKSQLTSALELEYETHFCRFLMPTIRGADTGSKKRYAGMIQEGDAQRMVFKGLETVRTDWTPLAQQFQQELYLRIFRNQPYQDYVRETIARLMNGELDEQLVYRKRLRRPLAEYQRNVPPHVRAARLADEHNLKLGRTQQYQQRGTIKYVWTTSGPEPVDYQQSPLDYDHYLTKQLQPVAEGILPFVNDDFATIVTGQLGLF
>NZ_CP012883.1|WP_002888353.1|3419273_3419969_-|L-ribulose-5-phosphate-4-epimerase
MLEDLKRQVLEANLALPKHNLVTLTWGNVSAVDREKGVFVIKPSGVDYRVMTADDMVVVSLESGEVVEGNKKPSSDTPTHRLLYQAFPTLGGIVHTHSRHATIWAQAGQSIPATGTTHADYFYGPVPCTRLMTDAEINGDYEWETGNVIVETFRQQGIDPAQMPGVLVHSHGPFAWGKNAEDAVHNAIVLEEIAYMGIFCRQLAPQLPAMQQTLLDKHYLRKHGAKAYYGQ
>NZ_CP012883.1|WP_021441192.1|3420106_3421609_-|L-arabinose-isomerase
MTIFDNYEVWFVIGSQHLYGPEALRQVTKHAEHVVNSLNAEAKLPCKLVLKPLGTTPDEITHICRDANYDDKCAGLVVWLHTFSPAKMWINGLTILNKPLLQFHTQYNAALPWDSIDMDFMNLNQTAHGGREFGFIGARMRQQHSVVTGHWQDKEAHQRIGGWMRQAVSKQDTRHLKVCRFGDNMREVAVTDGDKVAAQIKFGFSVNTWAVGDLVQVVNSISNGDISALVDEYESSYRLTPAAQVHGEKRQNVLDAARIELGMKRFLEQGGFHAFTTTFEDLHGLKQLPGLAVQRLMQQGYGFAGEGDWKTAALLRIMKVMSTGLQGGTSFMEDYTYHFDNGNDLVLGSHMLEVCPTIATAEKPILDVQPLGIGGKADPARLIFNTQTGPAIVASLIDLGDRFRLLVNTIETVPTPHDLPKLPVANALWKAQPDLRTASEAWIIAGGAHHTVFSHALNLDDMRQFAELHDIELTVIDNDTRLPSFKDALRWNEVYYGSKR
>NZ_CP012883.1|WP_023279864.1|3421619_3423329_-|ribulokinase
MAIAIGLDFGSDSVRALAVECASGAELATSVEWYPRWREGQYCDGANNRFRHHPRDYIESMEAALKSVLASLSAEQRADVVGIGVDSTGSTPAPVDAEGNVLALREEFADNPNAMFVLWKDHTAVEEAEAITRLCHQPGKEDYSRYIGGIYSSEWFWAKILHVTREDSAVAQAAASWVELCDWVPALLSGTTRPQDLRRGRCSAGHKSLWHESWGGLPPASFFDELDPIINQHLAWPLFTDTWTADVPVGTLSAEWAQRLGLSQTVAISGGAFDCHMGAVGAGAQPNALVKVIGTSTCDILIADKESVGERTVKGICGQVDGSVVPHFIGMEAGQSAFGDIYAWFGRILGWPLEQLAQQQPALREQIKASQKQLLPALTEAWANNPSLEHLPVVLDWFNGRRTPNANQRLKGVITDLNLATDAPALFGGLIAATAFGARAIMECFTEQGIPVNNVMALGGIARKNQVIMQACCDVLNRPLQIVASDQCCALGAAIFAAVAAGVYEDIPAAQQRMASQVETTLQPRPAQAQRFEQLYQRYQQWSVSAEQHYLPSAAKAEKAPQSQAALTH
>NZ_CP012883.1|WP_004145972.1|3423666_3424512_+|arabinose-operon-transcriptional-regulator-AraC
MAETQNDPLLPGYSFNAHLVTGLTPIEAQGYLDFFIDRPLGMKGYILNLTIRGEGVINNHGEQFVCRPGDMLLFPPGEIHHYGRHPDASEWYHQWVYFRPRAYWHEWLNWPTIFAQTGFFRPDEQWQARFGELFGQIVDAGQGAGRYSELLAINLLEQLLLRRMEAINESLHPPLDNRVRDACQYISDHLADSHFDIASVAQHVCLSPSRLSHLFRQQLGVSVLGWREDQRISQAKLLLSTTRMPIATVGRNVGFEDQLYFSRVFKKCTGASPSEFRAGCE
>NZ_CP012883.1|WP_002888373.1|3424640_3425408_+|DedA-family-protein
MQALLEHFITQSTVYSLLAVMLVAFLESLALVGLILPGTVMMAGLGALIGGGEVNFWQAWLAGIVGCLLGDWISFWLGWRFKKPLHRWSFMKKNRALLEKTEHALHQHSMITILIGRFVGPTRPLVPMVAGMLDLPVAKFVLPNIIGCLLWPPLYFLPGILAGAAIDIPADENSASFKWLLLGAALLAWLAGWLCWRLWRSAKTSGDRLTRWLPRGRLLWLSPLMVALAATALTFVFRHPLMPVYLAILHKVIAR

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Crispr_ID: NZ_CP012883_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP012883_2

3887351-3887503

Orphan

Consensus_repeat	Method
CGGCACAAACGCCGAATGCAAACGGCACAAACGCCGAAT	PILER-CR

2 spacers

The CRISPR arrays of NZ_CP012883_2

>merge|NZ_CP012883|2|3887351-3887503|PILER-CR
CGGCACAAACGCCGAATCGGAATAAGTCATTGAAAGAATTGGAAACGGCACAAGCGCCGAATGCAAACGGCACAAACGCCGAATGCATTCGGCATAAACGCCATATCCAGGATTCGGCACAAACGCCGAATGGAAACGGCACAAACGCCGAAT

>NZ_CP012883|2|1|3887351-3887503|PILER-CR
CGGCACAAACGCCGAATCGGAATAAGTCATTGAAAGAAT	TGGAAACGGCACAAGCGCCGAATGCAAA
CGGCACAAACGCCGAATGCATTCGGCATAAACGCCATAT	CCAGGATTCGGCACAAACGCCGAATGGAAA
CGGCACAAACGCCGAAT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP012883.1\|WP_032428578.1\|3891514_3891754_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_032428576.1\|3891193_3891433_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_021441332.1\|3891753_3892011_+\|DNA-polymerase-III-subunit-theta	unknown	unknown	gnl\|CDD\|368909
NZ_CP012883.1\|WP_021441329.1\|3888047_3888443_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_023158880.1\|3888442_3888664_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|184640
NZ_CP012883.1\|WP_023312759.1\|3886720_3886975_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_021441327.1\|3884360_3884486_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_032428574.1\|3889787_3890168_+\|HNH-endonuclease	unknown	unknown	gnl\|CDD\|214702
NZ_CP012883.1\|WP_032428571.1\|3886204_3886525_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_032428567.1\|3883324_3883549_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_160124493.1\|3884795_3884972_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_123640128.1\|3883780_3884002_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_021441330.1\|3888656_3889448_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274755
NZ_CP012883.1\|WP_032428570.1\|3885943_3886165_+\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|197775
NZ_CP012883.1\|WP_032428575.1\|3890164_3891109_+\|DUF551-domain-containing-protein	unknown	unknown	gnl\|CDD\|367946
NZ_CP012883.1\|WP_021441326.1\|3884074_3884368_-\|host-cell-division-inhibitory-peptide-Kil	unknown	unknown	gnl\|CDD\|310716
NZ_CP012883.1\|WP_032428579.1\|3892832_3893141_+\|DUF968-domain-containing-protein	unknown	unknown	gnl\|CDD\|374800
NZ_CP012883.1\|WP_032428566.1\|3882983_3883328_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP012883.1\|WP_032428569.1\|3885212_3885845_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|224885
NZ_CP012883.1\|WP_135661363.1\|3892030_3892309_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NZ_CP012883.1\|WP_021441332.1\|3891753_3892011_+\|DNA-polymerase-III-subunit-theta	gnl\|CDD\|368909	pfam06440, DNA_pol3_theta, DNA polymerase III, theta subunit. DNA polymerase III (EC 2.7.7.7) is comprised of three tightly associated subunits, alpha, epsilon and theta. This family contains the theta subunit. The structure of the theta subunit shows that the N-terminal two thirds is comprised of three helices while the C-terminal third is disordered. The function of the theta subunit is poorly understood, but the interaction of the theta subunit with the epsilon subunit is thought to enhance the 3' to 5' exonucleolytic proofreading activity of epsilon.	5.13092e-33
NZ_CP012883.1\|WP_023158880.1\|3888442_3888664_+\|hypothetical-protein	gnl\|CDD\|184640	PRK14351, ligA, NAD-dependent DNA ligase LigA; Provisional.	0.000358698
NZ_CP012883.1\|WP_021441326.1\|3884074_3884368_-\|host-cell-division-inhibitory-peptide-Kil	gnl\|CDD\|310716	pfam06301, Lambda_Kil, Bacteriophage lambda Kil protein. This family consists of several Bacteriophage lambda Kil protein like sequences from both phages and bacteria. Induction of a lambda prophage causes the death of the host cell even in the absence of phage replication and lytic functions due to expression of the lambda kil gene.	0.000161666
NZ_CP012883.1\|WP_021441330.1\|3888656_3889448_+\|hypothetical-protein	gnl\|CDD\|274755	TIGR03734, PRTRC_parB, PRTRC system ParB family protein. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family the member related to ParB, and is designated PRTRC system ParB family protein.	5.02634e-07
NZ_CP012883.1\|WP_032428570.1\|3885943_3886165_+\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|197775	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins.	1.36109e-11
NZ_CP012883.1\|WP_032428579.1\|3892832_3893141_+\|DUF968-domain-containing-protein	gnl\|CDD\|374800	pfam16786, RecA_dep_nuc, Recombination enhancement, RecA-dependent nuclease. REF is a family of P1-like phage RecA-dependent nucleases. It does not appear to act as a positive RecA regulator. It is a new kind of enzyme, a RecA-dependent nuclease.	1.42565e-08
NZ_CP012883.1\|WP_032428575.1\|3890164_3891109_+\|DUF551-domain-containing-protein	gnl\|CDD\|367946	pfam04448, DUF551, Protein of unknown function (DUF551). This family represents the carboxy terminus of a protein of unknown function, found in dsDNA viruses with no RNA stage, including bacteriophages lambda and P22, and also in some Escherichia coli prophages.	5.13736e-09
NZ_CP012883.1\|WP_032428574.1\|3889787_3890168_+\|HNH-endonuclease	gnl\|CDD\|214702	smart00507, HNHc, HNH nucleases.	5.32113e-06
NZ_CP012883.1\|WP_032428569.1\|3885212_3885845_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|224885	COG1974, LexA, SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms].	6.26742e-26

>NZ_CP012883.1|WP_023312759.1|3886720_3886975_+|hypothetical-protein
MCNHSAAELIARLKRAYPAYEPSEMGNACDGIPKAGSRFQHRHKSHMVTVITATEKDVSYRKACGKVGWMGLREFLRLHNEVLV
>NZ_CP012883.1|WP_032428571.1|3886204_3886525_+|hypothetical-protein
MENAIARKLEPPVLNPIEIEGILLNRLLSISQKTFAEMRGVSESTISRRKSEGYYAEMAKEIAALGLQVVPPEAVVVSRHYLQSVETLADIGLRAERCRPGPLGWD
>NZ_CP012883.1|WP_032428570.1|3885943_3886165_+|helix-turn-helix-domain-containing-protein
METISQRLKKKREELNLSQDQLAKLAGMRQQSIQAIEAGSTKRPRYLVELARALKCKPEWLLFGDDQNKSPAA
>NZ_CP012883.1|WP_032428569.1|3885212_3885845_-|helix-turn-helix-domain-containing-protein
MSLADRVKQKRMELGLTQTEAAERAGIRQQSWQSIEDGKTLKPRNIVGIAKALNCDPSWLMNGGAFMPIGEMNSRRVPLISYVQAGALAEKKSIEAFDGDFEYILTDLDLSVHSFALRIEGDSMEPDFKAGDVIIVDPELEPSPGEFVVAKNGGQEATFKKYRPTYTDMQGVQHFELVPLNDDYPVINCDTQPVEIIGVMIEHRIYRRKR
>NZ_CP012883.1|WP_160124493.1|3884795_3884972_-|hypothetical-protein
MSKLRLLKVTVRKSGNPVYFGRTRVARNAQKEVRLTHGRTLSTGCIDTKQRYLKLTAI
>NZ_CP012883.1|WP_021441327.1|3884360_3884486_-|hypothetical-protein
MLGCLMSKNGIRSLIYCLLICGVIWTAVVIKILHAAGVLNG
>NZ_CP012883.1|WP_021441326.1|3884074_3884368_-|host-cell-division-inhibitory-peptide-Kil
MANLLHGNPAFKAAQSKLAIAQFIGNSEMWSEAFSSMKDIYEEAKHAEDFMFCGREESLSTLKFNDVILNYDMYGDLISVNADSGNARYKINTEVSY
>NZ_CP012883.1|WP_123640128.1|3883780_3884002_-|hypothetical-protein
MEELKLHCHGCGGSFARDELQYRPSGRGAYRRDFYFCPVCNEKEKQKIALSAAASSFRKTLPSRPGHLAHKRW
>NZ_CP012883.1|WP_032428567.1|3883324_3883549_-|hypothetical-protein
MKIEFYDDGFNAITTITSTVFEFRLHNRAVDTALFLAPSVRAKRSGFFVLKTVITGKTSHVLRAYKALKAEASR
>NZ_CP012883.1|WP_032428566.1|3882983_3883328_-|hypothetical-protein
MSKSLNARCIRRWEVKFKSVCDSKHNPYWRKSDLRGYIREAALTTAYSMVESMAERNAKVDYDGAPNSWSYEFSLWYRLRREKYLKEARDYLDEDATNDEIDEEIENELEAWND
>NZ_CP012883.1|WP_021441329.1|3888047_3888443_+|hypothetical-protein
MEKITDVLKELEKVTCRELAVYFDLTAPEMLARLMVLEREGKAQNLNGYWMPGGSTEPVAVTSKLSALDIKLLQSVPVGVWFEWQSLAGFVDRPRYRCERLVAAGFMNSKVTNPGNPHHGTKFLKIREVTR
>NZ_CP012883.1|WP_023158880.1|3888442_3888664_+|hypothetical-protein
MREIPDCPVCGSAAEFYFRDYQAGACSGALRCPYGHLRVQDSYWAGGKSKSKIRLIEKWSQQVEQKKGEVKNG
>NZ_CP012883.1|WP_021441330.1|3888656_3889448_+|hypothetical-protein
MAKNSIDAYGASGKTNVLMFEPEKLHLVTDKAHPLYDERIHLPISEAMVLNIMDQGVLEPIIVWKDPESGLACVVDGRQRVRHTLEANKRLVKQGESPLLVPAVTKRGSAIRMAQAMVSANEIRQADTPLGRAKKMADALERGHDEDDLALMFGVSVQTVRATLSLLDATQAVKDAVESGTVTVTQARQLASLKPEEQRTKVAEIEQATAGKTGHEKARRQRQILGEAKPRLKTRKEITKALEGASGEYADALRWVLGEASHD
>NZ_CP012883.1|WP_032428574.1|3889787_3890168_+|HNH-endonuclease
MALTKKQRAELRMKFGGRCAYCGCELSDKWHADHAEAVRRNISNGYAMDRPENDTASNMVPACIPCNLFKMCSTVEDFRSRIATQVDVTRRASRSYRTAESFGLVQPTNAPVVFWFEKYQAEGANQ
>NZ_CP012883.1|WP_032428575.1|3890164_3891109_+|DUF551-domain-containing-protein
MTKSTITREQLEEWVAQFDEDGGCDATDMQLEALIRQSLAAMDSESGCLPLDYLQGHKDGLGWAAQLAEANHPETGDWLYDDPIELAKAIRKGPDMPPVRPAADSEPVALQPELAKVIYHFRDWNEGFPVERFKADYVISWMLANYPPAPPAPVVSADLLHTAASAIEDLLTTKDRTGACVWFDLPFRLRSAANAQPVTVVPDKMTAIVKDEAEYVEGWNACRAAMLAADPQLPGSDPATVPGKWIPVSEQMPPSRHEVLVGCWWGEKPRWCCKWATYIPCHPDAQSSGWLIPGASWTPTHWMELPAAPQEPKP
>NZ_CP012883.1|WP_032428576.1|3891193_3891433_+|hypothetical-protein
MNKVELLEKISALATECHTLACELDIGDERTEMFEIYSVLHNLGRRGYACQVGLRMNPLLASCDDDEDEEDDDWDEDED
>NZ_CP012883.1|WP_032428578.1|3891514_3891754_+|hypothetical-protein
MKKSDVFSTIRKTVDCAPKGDRTVTVQLQIIKYYHHLTGVTAKEFVEEIGLKSSLVTLFTDSMKLAKKLSEVGFDKEKI
>NZ_CP012883.1|WP_021441332.1|3891753_3892011_+|DNA-polymerase-III-subunit-theta
MSQWNIAAKSKDEQDKVNVDLAASGVAYKERLNMPVVAEVVAREQPEHLREYFMERVRYYREQSIQLPRASDPRYIEMAEQNSKK
>NZ_CP012883.1|WP_135661363.1|3892030_3892309_+|hypothetical-protein
MNKIQYLLVGYGRDGEIHDDTELKSRLTIFESSVGSSHRPPNAQFNRSYDVHLIPVDGKVYAVGVGRTLHGNELPDLISLSGVSPVPKEFTH
>NZ_CP012883.1|WP_032428579.1|3892832_3893141_+|DUF968-domain-containing-protein
MSKSKTKAEKLHLSRVAALGCIVCRNLNYGESPAEIHHCSSGTGLSVRADNFHVIPLCHAHHRTGGYGVAIHAGRKSWEEKFGTEAELMSQVLLELGETVND

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP012883_2	2.2\|3887457\|30\|NZ_CP012883\|PILER-CR	3887457-3887486	30	NZ_CP022925	Klebsiella pneumoniae strain ST307PT01 plasmid pJYC01B	21741-21770	0	1.0
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	NZ_CP022925	Klebsiella pneumoniae strain ST307PT01 plasmid pJYC01B	21674-21701	2	0.929
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	MK759884	Salmonella phage vB_SenM_SB18, complete genome	55986-56013	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	NC_015292	Erwinia phage phiEa104, complete genome	55704-55731	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	FQ482083	Erwinia amylovora phage phiEa104 complete genome	55704-55731	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	NC_011811	Erwinia phage phiEa21-4, complete genome	55718-55745	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	MG589384	Enterobacter phage phi63_307, complete genome	38534-38561	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	MN604407	Salmonella phage ST-3, complete genome	29137-29164	5	0.821
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	MH426725	Erwinia phage SunLIRen, complete genome	55704-55731	6	0.786
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	NZ_CP053689	Arthrobacter citreus strain NEB 577 plasmid unnamed1, complete sequence	65555-65582	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	AF208055	Bacteriophage phi31.1 Orf238 (orf238), Orf92 (orf92), Orf78 (orf78), Orf57 (orf57), Orf245 (orf245), Orf364 (orf364), Orf269 (orf269), Orf73 (orf73), Orf139a (orf139a), Orf79 (orf79), Orf85 (orf85), Orf68 (orf68), Orf63 (orf63), Orf75 (orf75), Orf139b (orf139b), Orf118 (orf118), Orf64 (orf64), Orf120 (orf120), Orf230 (orf230), Orf80 (orf80), Orf66 (orf66), Orf61a (orf61a), and Orf61b (orf61b) genes, complete cds	2830-2857	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	AF212846	Lactococcus lactis bacteriophage ul36.1 ORF111a (ORF111a), ORF78b (ORF78b), ORF61b (ORF61b), ORF245 (ORF245), ORF364 (ORF364), ORF235 (ORF235), ORF73 (ORF73), ORF109 (ORF109), ORF79b (ORF79b), ORF174 (ORF174), ORF68c (ORF68c), ORF184 (ORF184), putative dUTPase (ORF139b), ORF118a (ORF118a), and ORF65 (ORF65) genes, complete cds; and ORF120a gene, complete sequence	2631-2658	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	DQ394809	Lactococcus phage ul36.t1k1, complete genome	8160-8187	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	DQ394807	Lactococcus phage ul36.k1t1, complete genome	8162-8189	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	DQ394806	Lactococcus phage ul36.k1, complete genome	8162-8189	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	DQ394810	Lactococcus phage phismq86, complete genome	6257-6284	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	KT630644	Salmonella phage SEN1, complete genome	25548-25575	7	0.75
NZ_CP012883_2	2.1\|3887390\|28\|NZ_CP012883\|PILER-CR	3887390-3887417	28	AF212847	Lactococcus lactis bacteriophage ul36.2 ORF111b (ORF111b), ORF78b (ORF78b), ORF61b (ORF61b), ORF245 (ORF245), ORF364 (ORF364), and putative replisome organizer (ORF255) genes, complete cds; and ORF241 (ORF241) gene, partial cds	2706-2733	7	0.75

1. spacer 2.2|3887457|30|NZ_CP012883|PILER-CR matches to NZ_CP022925 (Klebsiella pneumoniae strain ST307PT01 plasmid pJYC01B) position: , mismatch: 0, identity: 1.0

gcattcggcataaacgccatatccaggatt	CRISPR spacer
gcattcggcataaacgccatatccaggatt	Protospacer
******************************

2. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to NZ_CP022925 (Klebsiella pneumoniae strain ST307PT01 plasmid pJYC01B) position: , mismatch: 2, identity: 0.929

cggaataagtcattgaaagaattggaaa	CRISPR spacer
cggaataagtcattgaaagaattggatt	Protospacer
**************************

3. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to MK759884 (Salmonella phage vB_SenM_SB18, complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggta	Protospacer
  ****************** ****. *

4. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to NC_015292 (Erwinia phage phiEa104, complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggga	Protospacer
  ****************** ****..*

5. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to FQ482083 (Erwinia amylovora phage phiEa104 complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggga	Protospacer
  ****************** ****..*

6. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to NC_011811 (Erwinia phage phiEa21-4, complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggga	Protospacer
  ****************** ****..*

7. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to MG589384 (Enterobacter phage phi63_307, complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggga	Protospacer
  ****************** ****..*

8. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to MN604407 (Salmonella phage ST-3, complete genome) position: , mismatch: 5, identity: 0.821

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaagatttgggga	Protospacer
  ****************** ****..*

9. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to MH426725 (Erwinia phage SunLIRen, complete genome) position: , mismatch: 6, identity: 0.786

cggaataagtcattgaaagaattggaaa	CRISPR spacer
atgaataagtcattgaaggatttgggga	Protospacer
  ***************.** ****..*

10. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to NZ_CP053689 (Arthrobacter citreus strain NEB 577 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tacaaaaagtcattgaaagaattagagg	Protospacer
.. ** *****************.**..

11. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to AF208055 (Bacteriophage phi31.1 Orf238 (orf238), Orf92 (orf92), Orf78 (orf78), Orf57 (orf57), Orf245 (orf245), Orf364 (orf364), Orf269 (orf269), Orf73 (orf73), Orf139a (orf139a), Orf79 (orf79), Orf85 (orf85), Orf68 (orf68), Orf63 (orf63), Orf75 (orf75), Orf139b (orf139b), Orf118 (orf118), Orf64 (orf64), Orf120 (orf120), Orf230 (orf230), Orf80 (orf80), Orf66 (orf66), Orf61a (orf61a), and Orf61b (orf61b) genes, complete cds) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

12. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to AF212846 (Lactococcus lactis bacteriophage ul36.1 ORF111a (ORF111a), ORF78b (ORF78b), ORF61b (ORF61b), ORF245 (ORF245), ORF364 (ORF364), ORF235 (ORF235), ORF73 (ORF73), ORF109 (ORF109), ORF79b (ORF79b), ORF174 (ORF174), ORF68c (ORF68c), ORF184 (ORF184), putative dUTPase (ORF139b), ORF118a (ORF118a), and ORF65 (ORF65) genes, complete cds; and ORF120a gene, complete sequence) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

13. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to DQ394809 (Lactococcus phage ul36.t1k1, complete genome) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

14. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to DQ394807 (Lactococcus phage ul36.k1t1, complete genome) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

15. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to DQ394806 (Lactococcus phage ul36.k1, complete genome) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

16. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to DQ394810 (Lactococcus phage phismq86, complete genome) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

17. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to KT630644 (Salmonella phage SEN1, complete genome) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
aggaataagccattgatagaattgctgc	Protospacer
 ********.****** *******  .

18. spacer 2.1|3887390|28|NZ_CP012883|PILER-CR matches to AF212847 (Lactococcus lactis bacteriophage ul36.2 ORF111b (ORF111b), ORF78b (ORF78b), ORF61b (ORF61b), ORF245 (ORF245), ORF364 (ORF364), and putative replisome organizer (ORF255) genes, complete cds; and ORF241 (ORF241) gene, partial cds) position: , mismatch: 7, identity: 0.75

cggaataagtcattgaaagaattggaaa	CRISPR spacer
tggaaaaagtcattgaaacaattgatgc	Protospacer
.**** ************ *****. .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

907733 : 914638

Bacillus_phage(33.33%)

tRNA

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004149058.1\|907733_909212_+	two-component system sensor histidine kinase BaeS	W8CYF6	Bacillus_phage	8.5e-30	28.3
WP_004175198.1\|909208_909931_+	two-component system response regulator BaeR	W8CYM9	Bacillus_phage	8.3e-31	33.2
WP_021440458.1\|910249_911611_+\|tRNA	tRNA 5-hydroxyuridine modification protein YegQ	Q6DW11	Phage_TP	3.9e-207	94.5
WP_004151134.1\|911853_912750_+	lipid kinase YegS	A0A1V0SBJ0	Catovirus	6.1e-15	29.8
WP_004180550.1\|912990_913764_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	3.9e-26	36.7
WP_004180551.1\|913774_914638_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	5.7e-10	27.5

DBSCAN-SWA_2

3877781 : 3921940

Salmonella_phage(32.56%)

terminase,tRNA,plate

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004143010.1\|3877781_3879167_+\|tRNA	cysteine--tRNA ligase	M1PG92	Moumouvirus	3.5e-46	35.4
WP_004143016.1\|3879212_3879425_-	ribosome-associated protein YbcJ	NA	NA	NA	NA
WP_004143017.1\|3879426_3880293_-	bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	A0A249XZQ2	Enterococcus_phage	1.3e-30	34.8
WP_004151317.1\|3881764_3882100_-	excisionase family DNA-binding protein	NA	NA	NA	NA
WP_021441324.1\|3882101_3882320_-	TraR/DksA family transcriptional regulator	A0A0K2FI84	Escherichia_phage	7.6e-12	52.2
WP_032428565.1\|3882316_3882991_-	hypothetical protein	R9VWB9	Serratia_phage	4.8e-57	53.0
WP_032428566.1\|3882983_3883328_-	hypothetical protein	NA	NA	NA	NA
WP_032428567.1\|3883324_3883549_-	hypothetical protein	A0A286S2B3	Klebsiella_phage	4.0e-16	55.4
WP_123640128.1\|3883780_3884002_-	hypothetical protein	NA	NA	NA	NA
WP_021441326.1\|3884074_3884368_-	host cell division inhibitory peptide Kil	NA	NA	NA	NA
WP_021441327.1\|3884360_3884486_-	hypothetical protein	NA	NA	NA	NA
WP_160124493.1\|3884795_3884972_-	hypothetical protein	NA	NA	NA	NA
WP_032428569.1\|3885212_3885845_-	helix-turn-helix domain-containing protein	A0A1I9KG86	Aeromonas_phage	1.1e-34	36.9
WP_032428570.1\|3885943_3886165_+	helix-turn-helix domain-containing protein	Q716D6	Shigella_phage	8.2e-14	55.7
WP_032428571.1\|3886204_3886525_+	hypothetical protein	A0A0M4RU01	Salmonella_phage	3.8e-36	68.9
WP_023312759.1\|3886720_3886975_+	hypothetical protein	NA	NA	NA	NA
WP_032428573.1\|3886971_3888021_+	hypothetical protein	K7PLZ7	Enterobacterial_phage	4.6e-30	45.7
WP_021441329.1\|3888047_3888443_+	hypothetical protein	NA	NA	NA	NA
WP_023158880.1\|3888442_3888664_+	hypothetical protein	NA	NA	NA	NA
WP_021441330.1\|3888656_3889448_+	hypothetical protein	A4JX52	Burkholderia_virus	1.1e-63	51.3
WP_032428574.1\|3889787_3890168_+	HNH endonuclease	K7P7B7	Enterobacteria_phage	2.5e-63	93.6
WP_032428575.1\|3890164_3891109_+	DUF551 domain-containing protein	A0A248SKW5	Klebsiella_phage	5.2e-49	95.0
WP_032428576.1\|3891193_3891433_+	hypothetical protein	G8C7S3	Escherichia_phage	3.9e-09	53.4
WP_032428578.1\|3891514_3891754_+	hypothetical protein	NA	NA	NA	NA
WP_021441332.1\|3891753_3892011_+	DNA polymerase III subunit theta	G8C7V1	Escherichia_phage	1.1e-25	72.7
WP_135661363.1\|3892030_3892309_+	hypothetical protein	NA	NA	NA	NA
WP_032428579.1\|3892832_3893141_+	DUF968 domain-containing protein	Q6V7S4	Burkholderia_virus	3.5e-23	56.5
WP_077264210.1\|3893133_3893793_+	phage N-6-adenine-methyltransferase	Q8HA94	Salmonella_phage	6.3e-102	80.0
WP_032428580.1\|3893789_3894368_+	DUF1133 family protein	A0A0U2S606	Escherichia_phage	5.4e-49	56.1
WP_032428581.1\|3894544_3894916_-	hypothetical protein	NA	NA	NA	NA
WP_032428582.1\|3894917_3895124_-	hypothetical protein	NA	NA	NA	NA
WP_032428583.1\|3895538_3896336_+	hypothetical protein	NA	NA	NA	NA
WP_048964767.1\|3896492_3896813_+	hypothetical protein	O64361	Escherichia_phage	3.1e-22	51.1
WP_032428584.1\|3896796_3897321_+	lysozyme	I6PBN2	Cronobacter_phage	4.2e-48	61.7
WP_032428586.1\|3897317_3897707_+	DUF2570 domain-containing protein	A0A192Y6H8	Salmonella_phage	2.6e-23	48.4
WP_021441335.1\|3898188_3898677_+	hypothetical protein	NA	NA	NA	NA
WP_021441336.1\|3898627_3900028_+\|terminase	PBSX family phage terminase large subunit	A0A077KAW0	Edwardsiella_phage	7.2e-188	69.2
WP_032428591.1\|3900265_3901717_+	DUF1073 domain-containing protein	A0A0M4S6U1	Salmonella_phage	3.8e-192	68.8
WP_032428680.1\|3901772_3902321_+	phage Mu F like family protein	A0A0M4REK0	Salmonella_phage	1.0e-49	56.9
WP_032428593.1\|3902372_3903575_+	DUF2213 domain-containing protein	A0A0M4R5A6	Salmonella_phage	2.0e-109	54.1
WP_032428595.1\|3903578_3904073_+	hypothetical protein	A0A2H4JHM9	uncultured_Caudovirales_phage	9.3e-50	62.7
WP_032428597.1\|3904084_3905026_+	DUF2184 domain-containing protein	A0A2H4J191	uncultured_Caudovirales_phage	3.0e-137	77.1
WP_021441342.1\|3905065_3905347_+	hypothetical protein	NA	NA	NA	NA
WP_023284784.1\|3905315_3905735_+	DUF4054 domain-containing protein	A0A0M5M3S2	Salmonella_phage	9.7e-40	60.7
WP_021312707.1\|3905731_3906238_+	hypothetical protein	NA	NA	NA	NA
WP_009652660.1\|3906237_3906642_+	hypothetical protein	A0A2H4J1A4	uncultured_Caudovirales_phage	1.1e-43	71.5
WP_064144275.1\|3906634_3907186_+	hypothetical protein	A0A2H4J1A0	uncultured_Caudovirales_phage	1.5e-40	44.9
WP_021441344.1\|3907187_3908339_+	DUF3383 family protein	A0A0M4RD26	Salmonella_phage	1.6e-177	81.5
WP_025269949.1\|3908349_3908790_+	DUF3277 family protein	A0A0M5M1K6	Salmonella_phage	2.1e-61	79.5
WP_032428602.1\|3908793_3909213_+	hypothetical protein	A0A2H4J2V6	uncultured_Caudovirales_phage	8.8e-41	65.2
WP_016244729.1\|3909254_3909407_+	hypothetical protein	A0A2H4J1A2	uncultured_Caudovirales_phage	1.4e-17	84.0
WP_021441346.1\|3909396_3911313_+	hypothetical protein	A0A0M4REK7	Salmonella_phage	3.3e-199	58.4
WP_032428603.1\|3911312_3911888_+	hypothetical protein	A0A0M3ULD5	Salmonella_phage	3.8e-63	66.5
WP_077264211.1\|3911963_3912191_+	hypothetical protein	A0A2H4J495	uncultured_Caudovirales_phage	1.6e-17	52.0
WP_021441348.1\|3912193_3913258_+	hypothetical protein	A0A0M4QX01	Salmonella_phage	4.8e-136	67.8
WP_032428607.1\|3913259_3913724_+	hypothetical protein	NA	NA	NA	NA
WP_032428608.1\|3913823_3914183_+	hypothetical protein	NA	NA	NA	NA
WP_021441349.1\|3914243_3914897_+	hypothetical protein	A0A0M5M1K7	Salmonella_phage	1.6e-73	59.1
WP_032428611.1\|3914898_3915252_+	bacteriophage protein	A0A2H4J629	uncultured_Caudovirales_phage	1.9e-49	79.5
WP_032428612.1\|3915251_3916451_+\|plate	baseplate J/gp47 family protein	A0A0M4RD32	Salmonella_phage	2.1e-156	72.4
WP_032428613.1\|3916447_3917224_+	DUF2612 domain-containing protein	A0A2H4J1A9	uncultured_Caudovirales_phage	8.8e-79	56.5
WP_071888015.1\|3917223_3918129_+	hypothetical protein	A0A1I9SEW2	Klebsiella_phage	1.7e-49	59.4
WP_071888016.1\|3918128_3918314_+	hypothetical protein	NA	NA	NA	NA
WP_148720654.1\|3921112_3921940_+	hypothetical protein	A0A0S1S106	Klebsiella_phage	3.5e-73	52.0

DBSCAN-SWA_3

4374389 : 4380728

Lactobacillus_prophage(33.33%)

integrase

attL 4374298:4374315|attR 4383649:4383666

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
4374298:4374315	attL	NA	NA	NA	NA
WP_072271781.1\|4374389_4375370_-\|integrase	tyrosine-type recombinase/integrase	A0A218M4I3	Erwinia_phage	2.6e-96	55.6
WP_032428730.1\|4375512_4375884_-	ASCH domain-containing protein	Q6SE87	Lactobacillus_prophage	8.0e-30	52.4
WP_032411929.1\|4375861_4376935_-	hypothetical protein	Q6SE88	Lactobacillus_prophage	3.7e-67	40.2
WP_032411930.1\|4376961_4378041_-	hypothetical protein	NA	NA	NA	NA
WP_040211182.1\|4378067_4378679_-	phage repressor protein CI	A0A1S6KZZ7	Salmonella_phage	4.3e-28	34.7
WP_135696540.1\|4379859_4380288_+	hypothetical protein	F1BUJ7	Cronobacter_phage	7.5e-56	82.6
WP_072271780.1\|4380308_4380728_+	hypothetical protein	F1BUJ7	Cronobacter_phage	4.5e-13	44.7
4383649:4383666	attR	NA	NA	NA	NA

DBSCAN-SWA_4

4418032 : 4427496

Dickeya_phage(16.67%)

tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004191152.1\|4418032_4419148_+	macrolide transporter subunit MacA	A0A140XAI1	Dickeya_phage	1.3e-06	52.7
WP_004150848.1\|4419144_4421085_+	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	1.9e-37	40.5
WP_002896516.1\|4421161_4421383_-	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	1.3e-16	61.2
WP_002896520.1\|4421708_4422026_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	2.0e-13	45.7
WP_002896522.1\|4422056_4424336_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	1.6e-165	42.0
WP_001040187.1\|4424456_4424675_-	translation initiation factor IF-1	NA	NA	NA	NA
WP_002898014.1\|4425028_4425730_-\|tRNA	leucyl/phenylalanyl-tRNA--protein transferase	NA	NA	NA	NA
WP_021441487.1\|4425774_4427496_-	cysteine/glutathione ABC transporter ATP-binding protein/permease CydC	A0A2R8FG22	Brazilian_cedratvirus	1.5e-14	34.3

DBSCAN-SWA_5

4864667 : 4935904

Klebsiella_phage(37.5%)

plate,protease,head,holin,capsid,tail,portal,terminase,integrase

attL 4862746:4862760|attR 4871479:4871493

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
4862746:4862760	attL	NA	NA	NA	NA
WP_019705447.1\|4864667_4865429_+	SDR family oxidoreductase	Q06VL0	Trichoplusia_ni_ascovirus	4.1e-20	32.1
WP_004183778.1\|4865645_4867178_+	HD domain-containing protein	A0A1B1ISR1	uncultured_Mediterranean_phage	8.8e-22	30.0
WP_016197745.1\|4867376_4867925_-	DJ-1/PfpI family protein	NA	NA	NA	NA
WP_019705445.1\|4868121_4869303_+\|integrase	site-specific integrase	A0A0M4QX09	Salmonella_phage	6.2e-201	84.0
WP_077255525.1\|4869283_4869526_-	AlpA family transcriptional regulator	A0A0M4RTZ2	Salmonella_phage	2.2e-20	73.8
WP_004198245.1\|4869485_4869632_-	hypothetical protein	A0A1B5FPC2	Escherichia_phage	2.9e-15	70.8
WP_023317663.1\|4870165_4870390_-	hypothetical protein	A0A286S2B3	Klebsiella_phage	1.8e-29	90.5
WP_032428838.1\|4870379_4871105_-	Rha family transcriptional regulator	A0A286S260	Klebsiella_phage	3.4e-109	85.0
WP_021441619.1\|4871110_4871629_-	hypothetical protein	A0A286S1S7	Klebsiella_phage	1.3e-94	99.4
4871479:4871493	attR	NA	NA	NA	NA
WP_023317661.1\|4871669_4872110_-	hypothetical protein	A0A286S1S2	Klebsiella_phage	1.2e-56	78.1
WP_004177206.1\|4872296_4872551_-	hypothetical protein	A0A286SGR4	Klebsiella_phage	2.5e-38	92.9
WP_023304721.1\|4872543_4872909_-	hypothetical protein	A0A286S1Q6	Klebsiella_phage	5.8e-57	97.5
WP_004177202.1\|4872909_4873134_-	hypothetical protein	NA	NA	NA	NA
WP_023317659.1\|4873316_4873730_-	hypothetical protein	NA	NA	NA	NA
WP_029602970.1\|4873893_4874553_-	LexA family transcriptional regulator	A0A1B5FPF4	Escherichia_phage	9.4e-98	79.5
WP_071646927.1\|4874708_4874942_+	helix-turn-helix domain-containing protein	A0A1B5FPK9	Escherichia_phage	2.2e-17	63.9
WP_023317658.1\|4875660_4877319_+	DEAD/DEAH box helicase	A0A286N2P9	Klebsiella_phage	0.0e+00	99.1
WP_023317657.1\|4877320_4878283_+	toprim domain-containing protein	A0A286N2Q0	Klebsiella_phage	1.3e-183	99.7
WP_023317656.1\|4878279_4878756_+	hypothetical protein	A0A286N2Q1	Klebsiella_phage	2.6e-89	98.7
WP_023317655.1\|4878752_4879535_+	antitermination protein	F1C595	Cronobacter_phage	3.8e-114	79.1
WP_004184721.1\|4879688_4879946_+	hypothetical protein	A0A286N2Q3	Klebsiella_phage	1.3e-42	100.0
WP_031280381.1\|4879851_4880298_-	hypothetical protein	NA	NA	NA	NA
WP_016160648.1\|4881129_4881345_+\|holin	class II holin family protein	A5LH82	Enterobacteria_phage	2.7e-30	88.7
WP_023317653.1\|4881344_4881842_+	lysozyme	A0A1V0E5Q7	Salmonella_phage	3.7e-78	85.2
WP_023317652.1\|4881838_4882189_+	hypothetical protein	R9TPM9	Aeromonas_phage	3.5e-11	38.1
WP_004218558.1\|4883093_4883339_+	DUF2560 family protein	A0A286N2R1	Klebsiella_phage	4.6e-34	96.3
WP_032428851.1\|4883765_4884170_+	DUF2513 domain-containing protein	NA	NA	NA	NA
WP_023317650.1\|4884271_4884613_+	HNH endonuclease	K7P7P4	Enterobacteria_phage	2.1e-48	75.7
WP_004177162.1\|4884795_4885260_+\|terminase	phage terminase small subunit P27 family	Q9B019	Phage_GMSE-1	3.7e-48	61.4
WP_021441628.1\|4885213_4886956_+\|terminase	terminase large subunit	A0A0U2C138	Paracoccus_phage	8.2e-141	46.0
WP_004177155.1\|4886955_4888263_+\|portal	phage portal protein	K7PJU5	Enterobacteria_phage	4.9e-215	85.7
WP_032428842.1\|4888276_4889095_+\|protease	Clp protease ClpP	K7PH05	Enterobacteria_phage	1.0e-133	88.9
WP_021441630.1\|4889104_4890322_+\|capsid	phage major capsid protein	K7PM57	Enterobacteria_phage	3.6e-196	87.9
WP_021441631.1\|4890364_4890634_+	hypothetical protein	A0A1P8DTJ1	Proteus_phage	1.8e-10	68.1
WP_004177149.1\|4890633_4890960_+\|head,tail	phage gp6-like head-tail connector protein	K7PKT4	Enterobacteria_phage	6.2e-42	69.4
WP_032428844.1\|4890971_4891310_+\|head	phage head closure protein	A0A2H4JHK5	uncultured_Caudovirales_phage	2.2e-42	75.0
WP_021441632.1\|4891306_4891756_+	HK97 gp10 family phage protein	Q9MCS9	Enterobacteria_phage	1.0e-63	83.2
WP_016530186.1\|4891752_4892100_+	DUF3168 domain-containing protein	K7PKL6	Enterobacterial_phage	2.8e-32	63.7
WP_023313062.1\|4892156_4892861_+	immunoglobulin domain-containing protein	K7PHL2	Enterobacterial_phage	5.5e-80	66.9
WP_032428846.1\|4892891_4893296_+\|tail	phage tail protein	K7PKV6	Enterobacterial_phage	1.7e-33	58.5
WP_032415151.1\|4893298_4893604_+	DUF4035 domain-containing protein	Q9MCS5	Enterobacteria_phage	8.1e-28	65.7
WP_032415149.1\|4893678_4894062_+	hypothetical protein	A0A0M4QWT0	Salmonella_phage	3.1e-32	53.9
WP_021441637.1\|4894129_4897540_+\|tail	phage tail tape measure protein	A0A0P0ZCJ4	Stx2-converting_phage	8.7e-195	43.3
WP_004177132.1\|4897560_4898034_+	hypothetical protein	A0A286S298	Klebsiella_phage	1.4e-55	62.1
WP_021441639.1\|4898020_4898497_+	DUF1833 family protein	A0A286S2B1	Klebsiella_phage	3.7e-51	65.8
WP_019706060.1\|4898509_4898890_+	nitrite transporter	A0A286S2A6	Klebsiella_phage	2.6e-60	83.3
WP_021441641.1\|4898886_4901964_+	kinase	A0A286S259	Klebsiella_phage	0.0e+00	62.0
WP_060553448.1\|4902038_4904765_+	hypothetical protein	A0A0S1S5D9	Klebsiella_phage	1.2e-242	54.1
WP_060553450.1\|4904773_4905610_+	hypothetical protein	A0A0S1S106	Klebsiella_phage	6.3e-99	65.1
WP_129718361.1\|4905745_4905931_-	hypothetical protein	NA	NA	NA	NA
WP_023317641.1\|4905971_4907207_-	hypothetical protein	NA	NA	NA	NA
WP_023317642.1\|4907207_4907951_-	hypothetical protein	NA	NA	NA	NA
WP_021440000.1\|4908042_4908591_+	recombinase family protein	A0A286S1P7	Klebsiella_phage	2.9e-92	96.7
WP_023317637.1\|4909637_4909919_+	hypothetical protein	NA	NA	NA	NA
WP_002902136.1\|4910141_4910390_-	DinI-like family protein	S5MQI1	Escherichia_phage	1.4e-25	70.4
WP_004176434.1\|4911235_4911727_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_021440001.1\|4911769_4913314_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_004179544.1\|4913323_4914667_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_004176431.1\|4914663_4915353_+	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_021440002.1\|4915349_4917056_+	OmpA family protein	NA	NA	NA	NA
WP_002902160.1\|4917060_4917552_+	type VI secretion system effector Hcp	NA	NA	NA	NA
WP_023302030.1\|4917816_4920471_+	type VI secretion system ATPase TssH	K4FB40	Cronobacter_phage	7.7e-98	33.4
WP_021440004.1\|4920472_4922842_+	type VI secretion system tip protein VgrG	A0A2H4JCD4	uncultured_Caudovirales_phage	2.4e-18	33.0
WP_021440005.1\|4922845_4923622_+	DUF4123 domain-containing protein	NA	NA	NA	NA
WP_023302028.1\|4923646_4924177_+	DUF3304 domain-containing protein	NA	NA	NA	NA
WP_021440007.1\|4924164_4926564_+	DUF2235 domain-containing protein	NA	NA	NA	NA
WP_023302025.1\|4926606_4926864_+	PAAR domain-containing protein	NA	NA	NA	NA
WP_021440008.1\|4926812_4927994_+	hypothetical protein	NA	NA	NA	NA
WP_021440009.1\|4927983_4931433_+	type VI secretion protein VasK	NA	NA	NA	NA
WP_004183804.1\|4931429_4933022_+	type VI secretion system protein TssA	NA	NA	NA	NA
WP_021440010.1\|4933100_4934855_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_004176418.1\|4934818_4935904_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA

DBSCAN-SWA_6

5129268 : 5140156

Escherichia_phage(87.5%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002210516.1\|5129268_5129889_-	aldolase	A0A077SK32	Escherichia_phage	8.0e-115	100.0
WP_004224682.1\|5129881_5131147_-	four-carbon acid sugar kinase family protein	A0A077SLJ7	Escherichia_phage	7.8e-234	99.8
WP_002903955.1\|5131158_5132061_-	NAD(P)-dependent oxidoreductase	A0A077SLF7	Escherichia_phage	2.6e-159	99.7
WP_002210513.1\|5132322_5133084_+	DeoR/GlpR transcriptional regulator	A0A077SK06	Escherichia_phage	1.9e-134	100.0
WP_021440083.1\|5133104_5133971_-	class A beta-lactamase SHV-187	A0A077SL40	Escherichia_phage	1.7e-155	99.6
WP_004176262.1\|5134262_5134523_+	hypothetical protein	A0A077SK33	Escherichia_phage	5.4e-41	98.8
WP_021440085.1\|5134609_5135698_+	AAA family ATPase	A0A077SLJ9	Escherichia_phage	5.2e-210	99.7
WP_004176258.1\|5135728_5136994_-	MFS transporter	NA	NA	NA	NA
WP_021440086.1\|5137048_5140156_-	beta-galactosidase	L0N6M2	Herpes_simplex_virus	0.0e+00	59.6

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

2. NZ_CP012884

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

121117 : 175355

Shigella_phage(15.38%)

transposase,bacteriocin,integrase

attL 150790:150809|attR 162629:162648

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_106475476.1\|121117_123448_+\|bacteriocin	klebicin B-related nuclease bacteriocin	NA	NA	NA	NA
WP_004199332.1\|124867_125146_+	replication regulatory protein RepA	NA	NA	NA	NA
WP_004171457.1\|125362_125440_+	RepA leader peptide Tap	NA	NA	NA	NA
WP_023307528.1\|125432_126290_+	incFII family plasmid replication initiator RepA	NA	NA	NA	NA
WP_004197483.1\|127654_127975_-	hypothetical protein	NA	NA	NA	NA
WP_077254108.1\|128360_129215_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	5.2e-80	54.2
WP_000537151.1\|129211_129496_-\|transposase	IS3 family transposase	U5P4I9	Shigella_phage	4.7e-14	47.1
WP_015065566.1\|130398_130818_+	DUF2946 domain-containing protein	NA	NA	NA	NA
WP_004182117.1\|130900_132964_+	TonB-dependent copper receptor	NA	NA	NA	NA
WP_023313931.1\|133020_133281_+	DUF2534 family protein	NA	NA	NA	NA
WP_004182120.1\|134386_135640_-	lactose permease	NA	NA	NA	NA
WP_004182121.1\|135691_138766_-	beta-galactosidase	L0N6M2	Herpes_simplex_virus	0.0e+00	96.7
WP_016831235.1\|138887_139970_-	DNA-binding transcriptional repressor LacI	C6ZCU4	Enterobacteria_phage	4.4e-185	96.1
WP_004152284.1\|140430_141441_+	zinc-binding alcohol dehydrogenase family protein	NA	NA	NA	NA
WP_165765869.1\|141774_142062_+	EAL domain-containing protein	NA	NA	NA	NA
WP_004118251.1\|142392_142686_-	IS66 family insertion sequence element accessory protein TnpB	A0A0P0ZDM8	Stx2-converting_phage	2.7e-49	96.9
WP_004152282.1\|142784_143552_-	Fe(3+) dicitrate ABC transporter ATP-binding protein FecE	G3M9Y6	Bacillus_virus	9.8e-14	25.2
WP_023328280.1\|143552_144509_-	Fe(3+) dicitrate ABC transporter permease subunit FecD	NA	NA	NA	NA
WP_004182126.1\|144505_145504_-	iron-dicitrate ABC transporter permease FecC	NA	NA	NA	NA
WP_004182127.1\|145500_146403_-	Fe(3+) dicitrate ABC transporter substrate-binding protein FecB	NA	NA	NA	NA
WP_004182128.1\|146447_148772_-	Fe(3+) dicitrate transport protein FecA	NA	NA	NA	NA
WP_004197067.1\|148858_149812_-	fec operon regulator FecR	NA	NA	NA	NA
WP_004197062.1\|149808_150330_-	RNA polymerase sigma factor FecI	NA	NA	NA	NA
150790:150809	attL	NA	NA	NA	NA
WP_004118231.1\|151432_151600_+\|integrase	integrase	NA	NA	NA	NA
WP_004118840.1\|151884_153012_+	transporter substrate-binding protein	NA	NA	NA	NA
WP_004118227.1\|154443_155364_+	ABC transporter permease	NA	NA	NA	NA
WP_004152278.1\|155376_156981_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_004118225.1\|157025_157973_+	acetamidase/formamidase family protein	A0A1V0S8X7	Catovirus	9.6e-11	22.7
WP_004118832.1\|157980_159714_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	6.9e-15	29.6
WP_072143344.1\|161624_162593_+\|transposase	IS5 family transposase	A0A1B0VFY5	Salmonella_phage	2.0e-173	91.6
WP_004181990.1\|163589_164510_-	two-component system response regulator RssB	W8CYM9	Bacillus_phage	2.0e-13	34.1
162629:162648	attR	NA	NA	NA	NA
WP_004181991.1\|164472_167853_-	response regulator	A0A1V0SGX0	Hokovirus	1.7e-41	30.3
WP_004181993.1\|169402_170329_+	urea ABC transporter permease subunit UrtB	NA	NA	NA	NA
WP_004181995.1\|171449_172199_+	urea ABC transporter ATP-binding protein UrtD	A0A2H4PQG7	Staphylococcus_phage	2.4e-17	26.4
WP_004181996.1\|172209_172899_+	urea ABC transporter ATP-binding subunit UrtE	G9BWD6	Planktothrix_phage	8.5e-17	29.6
WP_004118209.1\|175091_175355_-\|transposase	transposase	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP012883

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP012884

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection