CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NZ_CP042543	Enterobacter hormaechei strain C4 plasmid pC4_003, complete sequence	0 crisprs	NA	0	0
NZ_CP042541	Enterobacter hormaechei strain C4 plasmid pC4_001, complete sequence	1 crisprs	csa3	1	1
NZ_CP042542	Enterobacter hormaechei strain C4 plasmid pC4_002, complete sequence	0 crisprs	DEDDh	0	1
NZ_CP042540	Enterobacter hormaechei strain C4 chromosome, complete genome	1 crisprs	DEDDh,csa3,WYL,DinG,cas14j,cas3	1	6
NZ_CP042544	Enterobacter hormaechei strain C4 plasmid pC4_004, complete sequence	0 crisprs	NA	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP042541_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP042541_1

39984-40118

Orphan

Consensus_repeat	Method
TGGAATATCGATTCCACACGCCGGATTTAACTGGGACCACGGTCCCAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP042541_1

>merge|NZ_CP042541|1|39984-40118|CRISPRCasFinder
TGGAATATCGATTCCACACGCCGGATTTAACTGGGACCACGGTCCCACCTCCTACTTGCGTGTCAGAACTCATCCTTCAACCCCGTCTGGAATATCGATTCCACACGCCGGATTTAACTGGGACCATGGTCCCAC

>NZ_CP042541|1|1|39984-40118|CRISPRCasFinder
TGGAATATCGATTCCACACGCCGGATTTAACTGGGACCACGGTCCCAC	CTCCTACTTGCGTGTCAGAACTCATCCTTCAACCCCGTC
TGGAATATCGATTCCACACGCCGGATTTAACTGGGACCATGGTCCCAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP042541.1\|WP_000893479.1\|41926_42436_+\|restriction-endonuclease	unknown	unknown	gnl\|CDD\|377369
NZ_CP042541.1\|WP_013087127.1\|33734_34265_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_013087134.1\|38679_39645_+\|ParB/RepB/Spo0J-family-plasmid-partition-protein	unknown	unknown	gnl\|CDD\|184254
NZ_CP042541.1\|WP_071888819.1\|32728_33031_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_015572055.1\|35762_36773_-\|replication-initiation-protein	unknown	unknown	gnl\|CDD\|376444
NZ_CP042541.1\|WP_015572054.1\|34283_35060_+\|phage-integrase-family-protein	unknown	unknown	gnl\|CDD\|334163
NZ_CP042541.1\|WP_024139167.1\|45716_45929_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_032662171.1\|30498_32061_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|173776
NZ_CP042541.1\|WP_100135256.1\|41723_41942_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_004098817.1\|44495_45710_-\|type-II-site-specific-deoxyribonuclease	unknown	unknown	gnl\|CDD\|370247
NZ_CP042541.1\|WP_001749967.1\|42440_42647_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_001144737.1\|46877_47144_-\|plasmid-mobilization-relaxosome-protein-MobC	unknown	unknown	gnl\|CDD\|368576
NZ_CP042541.1\|WP_072199628.1\|40294_40975_-\|DUF4113-domain-containing-protein	unknown	unknown	gnl\|CDD\|179607
NZ_CP042541.1\|WP_001389365.1\|45970_46735_-\|IS6-like-element-IS6100-family-transposase	unknown	unknown	gnl\|CDD\|225853
NZ_CP042541.1\|WP_032662167.1\|32541_32772_-\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|226863
NZ_CP042541.1\|WP_032662169.1\|32134_32545_-\|PIN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350229
NZ_CP042541.1\|WP_001288432.1\|43028_44462_+\|DNA-cytosine-methyltransferase	unknown	unknown	gnl\|CDD\|236696
NZ_CP042541.1\|WP_013087126.1\|33313_33604_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042541.1\|WP_001067855.1\|41042_41747_-\|IS6-like-element-IS26-family-transposase	unknown	unknown	gnl\|CDD\|225853
NZ_CP042541.1\|WP_023327689.1\|37513_38680_+\|plasmid-partitioning-protein-SopA	unknown	unknown	gnl\|CDD\|184261

Protein	Function_ID	Function_description	E-value
NZ_CP042541.1\|WP_013087134.1\|38679_39645_+\|ParB/RepB/Spo0J-family-plasmid-partition-protein	gnl\|CDD\|184254	PRK13698, PRK13698, ParB/RepB/Spo0J family plasmid partition protein.	0
NZ_CP042541.1\|WP_000893479.1\|41926_42436_+\|restriction-endonuclease	gnl\|CDD\|377369	pfam04471, Mrr_cat, Restriction endonuclease. Prokaryotic family found in type II restriction enzymes containing the hallmark (D/E)-(D/E)XK active site. Presence of catalytic residues implicates this region in the enzymatic cleavage of DNA.	2.30856e-25
NZ_CP042541.1\|WP_015572055.1\|35762_36773_-\|replication-initiation-protein	gnl\|CDD\|376444	pfam01051, Rep_3, Initiator Replication protein. This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This family also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene.	0.000207968
NZ_CP042541.1\|WP_015572054.1\|34283_35060_+\|phage-integrase-family-protein	gnl\|CDD\|334163	pfam00589, Phage_integrase, Phage integrase family. Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.	9.41107e-39
NZ_CP042541.1\|WP_032662171.1\|30498_32061_-\|AAA-family-ATPase	gnl\|CDD\|173776	cd01026, TOPRIM_OLD, TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.	3.83508e-20
NZ_CP042541.1\|WP_004098817.1\|44495_45710_-\|type-II-site-specific-deoxyribonuclease	gnl\|CDD\|370247	pfam09019, EcoRII-C, EcoRII C terminal. The C-terminal catalytic domain of the Restriction Endonuclease EcoRII has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. It cleaves DNA specifically at single 5' CCWGG sites.	3.17312e-89
NZ_CP042541.1\|WP_001144737.1\|46877_47144_-\|plasmid-mobilization-relaxosome-protein-MobC	gnl\|CDD\|368576	pfam05713, MobC, Bacterial mobilisation protein (MobC). This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localized DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA.	3.4368e-05
NZ_CP042541.1\|WP_072199628.1\|40294_40975_-\|DUF4113-domain-containing-protein	gnl\|CDD\|179607	PRK03609, umuC, translesion error-prone DNA polymerase V subunit UmuC.	4.99848e-165
NZ_CP042541.1\|WP_001389365.1\|45970_46735_-\|IS6-like-element-IS6100-family-transposase	gnl\|CDD\|225853	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	8.97603e-67
NZ_CP042541.1\|WP_032662167.1\|32541_32772_-\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	gnl\|CDD\|226863	COG4456, VagC, Virulence-associated protein and related proteins [Function unknown].	1.20731e-10
NZ_CP042541.1\|WP_032662169.1\|32134_32545_-\|PIN-domain-containing-protein	gnl\|CDD\|350229	cd09881, PIN_VapC4-5_FitB-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae FitB and related proteins. This family includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This family belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	4.70668e-41
NZ_CP042541.1\|WP_001288432.1\|43028_44462_+\|DNA-cytosine-methyltransferase	gnl\|CDD\|236696	PRK10458, PRK10458, DNA cytosine methylase; Provisional.	0
NZ_CP042541.1\|WP_001067855.1\|41042_41747_-\|IS6-like-element-IS26-family-transposase	gnl\|CDD\|225853	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	2.30323e-69
NZ_CP042541.1\|WP_023327689.1\|37513_38680_+\|plasmid-partitioning-protein-SopA	gnl\|CDD\|184261	PRK13705, PRK13705, plasmid-partitioning protein SopA; Provisional.	0

>NZ_CP042541.1|WP_013087134.1|38679_39645_+|ParB/RepB/Spo0J-family-plasmid-partition-protein
MKRAPVIPKHTVKDIRPETEPSAAPAAPMVDSLIARVGAMARGNTILLPVCGREVKFILEAIPGESVETASRVWSGNERDQELLTEDALDDLIPSFMLSGQQTPAFGRRVEGVIEIADGSRRRKAAILTSSDYRVLVGDLDDEQMMALSRLGNDYRPVSAYERGNRYAQRLENDFNGNISALAEAENISRKIITRCINTAHLPKSVVALFTHPGELSARSGETLYKAFSGKEALLLQRTQQLHEQKKAGVIFESEEVIGLLTDVLKEPSGKKVNLNTRHQFVPGATALYKGDKVIFNLDKSRLPAECIEKIESILRDLQKV
>NZ_CP042541.1|WP_023327689.1|37513_38680_+|plasmid-partitioning-protein-SopA
MGLMETLDQCITAGHEMTKAIAIAQFNDDSPEARKITRRWRVGEAADLIGVSSQAIRDAEKAGRLPHPDMEMRGRVEQRVGYTIEQINHMRDVFGTRLRRPDDSVPPVIAVAAHKGGVYKTSVSVHLAQDLALKGLRVLLVEGNDPQGTASMYHGWVPDLHIHAEDTLLPFYLGERDDAAYAVKATCWPGLDIIPSCLALHRIETELMGRFDNGKLPTEPHMMLRLAIETVAHDYDVIVIDSAPNLGIGTINVVCAADVLIVPTPAELFDYTSALQFFDMLRDLLKNVDLQGFEPDVRILLTKYSNNNGSQSPWMEEQIRDAWGSMVLKNVVRETDEVGKGQIRMRTVFEQAIDQRSSTGAWRNALSIWEPVCNEIFDRLIKPRWEIR
>NZ_CP042541.1|WP_015572055.1|35762_36773_-|replication-initiation-protein
MAMENNELPLNLQEVNKTTGEVVKLDVNSASTVQPVALMRLGLFVPTLKSTSRSKTNRKNVTDATEELVQLSIARSEGYTDVRITGSRLDMDTDFKVWLGIIRSMYDFGVKDDTLKLSFVEFVKMCGFDSRRSNKKMRDRISNSLFKLASVTLKFQSETKGWTTHLVQSAYYDITADVVEIRAEPKLFELYQMDRRVLLRLKAIDALQRKESAQALYTYIESLPQNPAPISMKRMRDRLNLTSNLYTQNHTVRKAMAQLKDIGYLDYTEFKRGRATYFSVHYRNPKLISSKVVVPREPEEEVPEQNYDEVIKALKAAGIDPQKLAKALASVKPGND
>NZ_CP042541.1|WP_015572054.1|34283_35060_+|phage-integrase-family-protein
MMPALPGHSGAFSSAQLPVAIDYPAALALRQMALVQDELPKYLLAPEVSALLHYVPDLHRKMLLTTLWNTGARINEALALTRSDFSLAPPYPFVQLATLKQRVEKAARTAGRAPAGSQPHRNVPLSDPQYARQLEMMVATLKIPLERRNKRTGRTEKVRIWEITDRTVRTWLGEAVEAAAADGVTFSVPVTPHTFRHSYAMHMLYAGIPLKVLQSLMGHKSISSTEVYTKVFALDVAARHRVQFSMAEADAVAMLKKR
>NZ_CP042541.1|WP_013087127.1|33734_34265_+|hypothetical-protein
MCKLTGFIMGLTILLGVTARDAGAATLSEMRMVNASQKPGMVIICSRTSEIPQKGESPVRIESLLRGVVLQNDGDRMMFDVTYTQRNAEESIPFRTEKYRLTTELEATRQKMAIDPETIELSLPRARGLEETFLAGMKASPVSFEDYTNYRVKSATEYLILPGPASPDAPVMHCTL
>NZ_CP042541.1|WP_013087126.1|33313_33604_+|hypothetical-protein
MNMKITLSVLFEALIILGHDRVWMEESEFEHIYGYGCYREIHTWDDRTVAWWDDADDTWYLSTEVDVITPFLGPLPKKEGELSEEKCFQLMTLGRY
>NZ_CP042541.1|WP_071888819.1|32728_33031_+|hypothetical-protein
MARLLPFLKIDTVLMIFLPGKYGYVMHIRNEVHCTGCVHMFSIGRCSAYVYIEHMQMVSICVCHTYADVRHMDMLCISFLFTFPGQIRKKVVPDHGDFLR
>NZ_CP042541.1|WP_032662167.1|32541_32772_-|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDSIILRPVRPTWGSFLELEKADPDFMAERGDVVSDEGRVNL
>NZ_CP042541.1|WP_032662169.1|32134_32545_-|PIN-domain-containing-protein
MNKMYMLDTNICSFIMREQPEAVLKRLEQAVLRGHRIVVSAITWAEVSLASQEAGPAAQKLADAFAARLDAILPWDRTAVDATTEIKVALRLAGTPIGPNDTAIAGHAIAAGAVLVTNNVREFERVPGLVLEDWVR
>NZ_CP042541.1|WP_032662171.1|30498_32061_-|AAA-family-ATPase
MPLITRLMLQNFKKFPELDLRFTHDRNILVGDNESGKSTILLALDLVLSDSRHRVEALGVESLLSQSAVRHFQEGERRAELLPVLTADVFLSNGGDPDLNGRQNLAGIDADGLRMRIAPMTEEYGQDIHNVLQQDPDNFPYEYYSVRFSTFSGGHFAGFRRYLRHLLLDSARIDNEHAAQEYTRTVYSVNVPVADRYRLENSYRQQKMLFCTRHLSAINDTLETYQFGVRSGAKSGLEANLDITEDGISIRHRGKGRQCFIKTEFALQRHQQQGELHALLLEEPENHLSHVSMKRLVNQLATERQTQVFIATHSSHISSRLDLRKAILLGSTRPVLMNELSAETAAFFMKAPDNNVLEFALARRALLVEGDAEFILIEAFYRRLYGRAPEDDGVHIIAIGGTSFRRYLELARLLENRVAALRDNDGNYQQNCDERYADVLCSRTRAFADRDNTRSTFEICLYQDNAALCDALFRGTRRTLTVQEYMLANKAEAAFRLLQLHAEELTVPDYIQEALAWIRE
>NZ_CP042541.1|WP_072199628.1|40294_40975_-|DUF4113-domain-containing-protein
MGIRTALDLALTNPAFIRKNFSVVLERTVRELNGESCMSLEEAPPTKQQIVCSRSFGEKITEYDSLRQAVCQYAERASEKLRKERQYCRHISVFIKTSPFAVKEPYYGNVATEKLLTPTQDTRDIIAAATTALERIWKDGHLYAKAGVMLNDFTGSGVSQLQLFDERPPRPHSSELMKVLDGINHSGLGQIWFAGRGIAPSWQMKRDMLSPAYTTRWKDIPVARIR
>NZ_CP042541.1|WP_001067855.1|41042_41747_-|IS6-like-element-IS26-family-transposase
MNPFKGRHFQRDIILWAVRWYCKYGISYRELQEMLAERGVNVDHSTIYRWVQRYAPEMEKRLRWYWRNPSDLCPWHMDETYVKVNGRWAYLYRAVDSRGRTVDFYLSSRRNSKAAYRFLGKILNNVKKWQIPRFINTDKAPAYGRALALLKREGRCPSDVEHRQIKYRNNVIECDHGKLKRIIGATLGFKSMKTAYATIKGIEVMRALRKGQASAFYYGDPLGEMRLVSRVFEM
>NZ_CP042541.1|WP_100135256.1|41723_41942_+|hypothetical-protein
MPAFEWVHVQLHQQKGMISLSPPTICNSALQKTLFYGLAAPSHCLPLYSSGVQYGTGDTKGSSKVRGGCWSA
>NZ_CP042541.1|WP_000893479.1|41926_42436_+|restriction-endonuclease
MLERIKTLPGFPQKINYLRKIDPFVFEELLLEGFEAHGFRTIRNKRYTGDGGIDGQVIIGKYRYLIQAKRYRGHIALQHVQEFEKLLKRHNCRGLFCHTGKTGAGSKSVSIASERMEIISGQRLIDLLTPGSSFTIATAPQTMMKRTAATLETSTIVKDAGKENRYHES
>NZ_CP042541.1|WP_001749967.1|42440_42647_+|hypothetical-protein
MKSVTIEAKTFAEMLGITEGELIFAIKKTGTFKNKTIPQPHEPHKSNNRFLYSDVMRFIESLKDKENR
>NZ_CP042541.1|WP_001288432.1|43028_44462_+|DNA-cytosine-methyltransferase
MSEFELLAQDLLEKAEAEEQLRQENDKKLLGQVLEIYDQKYVAELLRKVGKNEWSRETLNRWINGKCSPKTLTLAEEELLRKMLPEAPAHHPDYAFRFIDLFAGIGGIRKGFETIGGQCVFTSEWNKEAVRTYKANWFNDAQEHTFNLDIREVTLSDKPEVPENDAYAYINEHVPDHDVLLAGFPCQPFSLAGVSKKNSLGRAHGFECEAQGTLFFDVARIIRAKKPAIFVLENVKNLKSHDKGKTFKVIMDTLDELGYEVADAAEMGKNDPKVIDGKHFLPQHRERIVLVGFRRDLNIHQGFTLRDISRFYPEQRPSFGELLEPVVDSKYILTPKLWEYLYNYAKKHAAKGNGFGFGLVNPENKESIARTLSARYHKDGSEILIDRGWDMATGETDFANEENQAHRPRRLTPRECARLMGFEKVDGRPFRIPVSDTQSYRQFGNSVVVPVFEAVAKLLEPYILKAVNADSCKVERI
>NZ_CP042541.1|WP_004098817.1|44495_45710_-|type-II-site-specific-deoxyribonuclease
MLMSVFHNWLLEIACENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSRHFGKTRNEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCKEVNIWVCASTDEEDVIETAIGEVIPGALISGPAGQILGGLSLQQAPVNHKYILPEDWHLRFPSGSEIIQYAASHYVKNSLDPDEQLLDRRRVEYDIFLLVEELHVLDIIRKGFGSVDEFIALANSVSNRRKSRAGKSLELHLEHLFIEHGLRHFATQAITEGNKKPDFLFPSAGAYHDTEFPVENLRMLAVKTTCKDRWRQILNEADKIHQVHLFTLQEGVSLAQYREMRESGVRLVVPSSLHKKYPEAVRAELMTLGAFIAELTGLYADIP
>NZ_CP042541.1|WP_024139167.1|45716_45929_-|hypothetical-protein
MQQSLRRHAHLALVHTSIEHSRDWCRSLLILNCQELAAQQPLRPINWCSRLLKMTLFVYNHEKMVSRVSG
>NZ_CP042541.1|WP_001389365.1|45970_46735_-|IS6-like-element-IS6100-family-transposase
MTDFKWRHFQGDVILWAVRWYCRYPISYRDLEEMLAERGISVDHTTIYRWVQCYAPEMEKRLRWFWRRGFDPSWRLDETYVKVRGKWTYLYRAVDKRGDTIDFYLSPTRSAKAAKRFLGKALRGLKHWEKPATLNTDKAPSYGAAITELKREGKLDRETAHRQVKYLNNVIEADHGKLKILIKPVRGFKSIPTAYATIKGFEVMRALRKGQARPWCLQPGIRGEVRLVERAFGIGPSALTEAMGMLNHHFAAAA
>NZ_CP042541.1|WP_001144737.1|46877_47144_-|plasmid-mobilization-relaxosome-protein-MobC
MPVLTDEEVNTVRESCRQLGAIGRNLNQVARALNIEFRESDKLKQEAIEKLAERIDQHLDHVSELFDKTWSRWHDCHFQKTTAPVDWA

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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_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP012428	Klebsiella pneumoniae strain KP5 plasmid pSg1-2, complete sequence	20127-20165	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NC_014107	Enterobacter cloacae subsp. cloacae ATCC 13047 plasmid pECL_A, complete sequence	48095-48133	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP046273	Enterobacter hormaechei strain E70 plasmid pE70-sul2, complete sequence	40032-40070	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP012169	Enterobacter hormaechei subsp. steigerwaltii strain 34998 plasmid p34998-210.894kb, complete sequence	40032-40070	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP042541	Enterobacter hormaechei strain C4 plasmid pC4_001, complete sequence	40032-40070	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP031723	Enterobacter hormaechei strain WCHEH020038 plasmid p2_020038, complete sequence	50311-50349	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP042567	Enterobacter hormaechei strain C44 plasmid pC44_001, complete sequence	40032-40070	0	1.0
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP035636	Enterobacter cloacae strain EN3600 plasmid unnamed4, complete sequence	100226-100264	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP017182	Enterobacter kobei strain DSM 13645 plasmid pDSMZ13645, complete sequence	1315-1353	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP017182	Enterobacter kobei strain DSM 13645 plasmid pDSMZ13645, complete sequence	1402-1440	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP031569	Enterobacter hormaechei strain 2013_1a plasmid pIncFIB-1301491, complete sequence	7815-7853	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP050011	Citrobacter sp. Y3 plasmid unnamed2, complete sequence	27572-27610	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP019840	Enterobacter roggenkampii strain R11 plasmid pASM1, complete sequence	70340-70378	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP022149	Enterobacter roggenkampii strain 704SK10 plasmid p704SK10_1, complete sequence	50338-50376	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP009855	UNVERIFIED_ORG: Enterobacter cloacae strain ECNIH5 plasmid pENT-22e, complete sequence	14593-14631	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP008907	Enterobacter hormaechei subsp. hoffmannii ECR091 plasmid pENT-4bd, complete sequence	83191-83229	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP026851	UNVERIFIED_ORG: Enterobacter cloacae strain AR_0072 plasmid unnamed1	65584-65622	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_LT991956	Enterobacter hormaechei subsp. steigerwaltii isolate C309 plasmid pC309-p2	52487-52525	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP029719	UNVERIFIED_ORG: Enterobacter cloacae strain AR_0154 plasmid unnamed1, complete sequence	1341-1379	1	0.974
NZ_CP042541_1	1.1\|40032\|39\|NZ_CP042541\|CRISPRCasFinder	40032-40070	39	NZ_CP039454	Enterobacter bugandensis strain 220 plasmid pSurvcare220, complete sequence	72766-72804	3	0.923

1. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP012428 (Klebsiella pneumoniae strain KP5 plasmid pSg1-2, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

2. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NC_014107 (Enterobacter cloacae subsp. cloacae ATCC 13047 plasmid pECL_A, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

3. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP046273 (Enterobacter hormaechei strain E70 plasmid pE70-sul2, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

4. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP012169 (Enterobacter hormaechei subsp. steigerwaltii strain 34998 plasmid p34998-210.894kb, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

5. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP042541 (Enterobacter hormaechei strain C4 plasmid pC4_001, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

6. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP031723 (Enterobacter hormaechei strain WCHEH020038 plasmid p2_020038, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

7. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP042567 (Enterobacter hormaechei strain C44 plasmid pC44_001, complete sequence) position: , mismatch: 0, identity: 1.0

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgtc	Protospacer
***************************************

8. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP035636 (Enterobacter cloacae strain EN3600 plasmid unnamed4, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

9. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP017182 (Enterobacter kobei strain DSM 13645 plasmid pDSMZ13645, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

10. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP017182 (Enterobacter kobei strain DSM 13645 plasmid pDSMZ13645, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

11. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP031569 (Enterobacter hormaechei strain 2013_1a plasmid pIncFIB-1301491, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

12. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP050011 (Citrobacter sp. Y3 plasmid unnamed2, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

13. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP019840 (Enterobacter roggenkampii strain R11 plasmid pASM1, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

14. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP022149 (Enterobacter roggenkampii strain 704SK10 plasmid p704SK10_1, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

15. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP009855 (UNVERIFIED_ORG: Enterobacter cloacae strain ECNIH5 plasmid pENT-22e, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

16. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP008907 (Enterobacter hormaechei subsp. hoffmannii ECR091 plasmid pENT-4bd, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

17. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP026851 (UNVERIFIED_ORG: Enterobacter cloacae strain AR_0072 plasmid unnamed1) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

18. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_LT991956 (Enterobacter hormaechei subsp. steigerwaltii isolate C309 plasmid pC309-p2) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

19. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP029719 (UNVERIFIED_ORG: Enterobacter cloacae strain AR_0154 plasmid unnamed1, complete sequence) position: , mismatch: 1, identity: 0.974

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtgtcagaactcatccttcaaccccgcc	Protospacer
*************************************.*

20. spacer 1.1|40032|39|NZ_CP042541|CRISPRCasFinder matches to NZ_CP039454 (Enterobacter bugandensis strain 220 plasmid pSurvcare220, complete sequence) position: , mismatch: 3, identity: 0.923

ctcctacttgcgtgtcagaactcatccttcaaccccgtc	CRISPR spacer
ctcctacttgcgtttcagaactcatccgtcaaccccgcc	Protospacer
************* ************* *********.*

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

34283 : 107112

uncultured_Caudovirales_phage(25.0%)

integrase,transposase

attL 72375:72389|attR 109299:109313

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_015572054.1\|34283_35060_+\|integrase	phage integrase family protein	I3WFA4	Macacine_betaherpesvirus	7.0e-52	91.2
WP_015572055.1\|35762_36773_-	replication initiation protein	J9Q7H0	Salmonella_phage	6.3e-85	55.2
WP_023327689.1\|37513_38680_+	plasmid-partitioning protein SopA	A0A2I6B2X3	Macacine_betaherpesvirus	5.5e-218	94.3
WP_013087134.1\|38679_39645_+	ParB/RepB/Spo0J family plasmid partition protein	I3WF22	Macacine_betaherpesvirus	9.8e-136	76.9
WP_072199628.1\|40294_40975_-	DUF4113 domain-containing protein	F1C5A5	Cronobacter_phage	1.6e-79	62.8
WP_001067855.1\|41042_41747_-\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_100135256.1\|41723_41942_+	hypothetical protein	NA	NA	NA	NA
WP_000893479.1\|41926_42436_+	restriction endonuclease	NA	NA	NA	NA
WP_001749967.1\|42440_42647_+	hypothetical protein	NA	NA	NA	NA
WP_001288432.1\|43028_44462_+	DNA cytosine methyltransferase	E5E3X6	Burkholderia_phage	7.0e-106	50.6
WP_004098817.1\|44495_45710_-	type II site-specific deoxyribonuclease	E5E3X4	Burkholderia_phage	1.2e-34	42.5
WP_024139167.1\|45716_45929_-	hypothetical protein	NA	NA	NA	NA
WP_001389365.1\|45970_46735_-\|transposase	IS6-like element IS6100 family transposase	A0A077SL39	Escherichia_phage	4.3e-86	65.7
WP_001144737.1\|46877_47144_-	plasmid mobilization relaxosome protein MobC	NA	NA	NA	NA
WP_004201280.1\|47364_47838_-	trimethoprim-resistant dihydrofolate reductase DfrA14	G3MBI7	Bacillus_virus	8.4e-16	28.9
WP_000845048.1\|47993_49007_+\|integrase	class 1 integron integrase IntI1	A0A1P8DJJ6	Virus_Rctr41k	1.0e-71	45.5
WP_001067855.1\|49077_49782_+\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_001011939.1\|49925_50567_-	type A-2 chloramphenicol O-acetyltransferase CatII	G3CFL0	Escherichia_phage	7.3e-55	45.9
WP_001239317.1\|50716_51217_-	hypothetical protein	NA	NA	NA	NA
WP_001067855.1\|51296_52001_+\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_004118521.1\|52209_52932_+	arsenical resistance protein ArsH	A0A2H4J5V6	uncultured_Caudovirales_phage	1.5e-96	73.0
WP_001549888.1\|52989_53418_-	arsenate reductase (glutaredoxin)	A0A2H4J8T1	uncultured_Caudovirales_phage	2.3e-52	70.7
WP_001549887.1\|53467_54751_-	arsenic transporter	A0A2H4J144	uncultured_Caudovirales_phage	2.9e-175	74.6
WP_001549886.1\|54846_55200_-	metalloregulator ArsR/SmtB family transcription factor	A0A2H4J145	uncultured_Caudovirales_phage	5.9e-22	57.1
WP_001549885.1\|55682_57161_+	SulP family inorganic anion transporter	A0A2H4J153	uncultured_Caudovirales_phage	1.6e-198	74.0
WP_004118529.1\|57179_58007_+	universal stress protein	NA	NA	NA	NA
WP_001143760.1\|58171_61177_-\|transposase	Tn3-like element Tn3 family transposase	Q1MVP5	Enterobacteria_phage	0.0e+00	100.0
WP_001235713.1\|61340_61898_+	recombinase family protein	Q1MVP4	Enterobacteria_phage	7.0e-94	100.0
WP_000027057.1\|62080_62941_+	class A broad-spectrum beta-lactamase TEM-1	Q1MVP3	Enterobacteria_phage	4.6e-161	100.0
WP_001120891.1\|63150_63690_+\|transposase	IS91 family transposase	NA	NA	NA	NA
WP_000480968.1\|63661_64498_-	aminoglycoside O-phosphotransferase APH(6)-Id	NA	NA	NA	NA
WP_001082319.1\|64497_65301_-	aminoglycoside O-phosphotransferase APH(3'')-Ib	NA	NA	NA	NA
WP_001043260.1\|65361_66177_-	sulfonamide-resistant dihydropteroate synthase Sul2	A0A0B5J4J5	Pandoravirus	5.9e-09	27.6
WP_000954592.1\|66505_66682_+	DUF4102 domain-containing protein	T1S9J3	Salmonella_phage	1.0e-06	68.6
WP_000427619.1\|66863_67868_-\|transposase	IS110-like element IS5075 family transposase	NA	NA	NA	NA
WP_001067855.1\|69764_70469_-\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_151548507.1\|70480_70738_-	hypothetical protein	NA	NA	NA	NA
WP_013087170.1\|70746_71460_-	arsenical resistance protein ArsH	A0A2H4J5V6	uncultured_Caudovirales_phage	8.1e-95	72.3
WP_013087171.1\|71461_71785_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012540086.1\|72085_72352_+	DUF1778 domain-containing protein	NA	NA	NA	NA
WP_013087172.1\|72339_72825_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
72375:72389	attL	NA	NA	NA	NA
WP_000589001.1\|73243_74584_+\|transposase	ISNCY family transposase	NA	NA	NA	NA
WP_032072095.1\|74839_75262_-	nickel resistance OB fold protein NcrY	NA	NA	NA	NA
WP_004196366.1\|75423_76554_-	Ni(II)/Co(II) efflux transporter permease subunit NcrC	NA	NA	NA	NA
WP_004196355.1\|76566_76836_-	nickel-sensing transcriptional repressor NcrB	NA	NA	NA	NA
WP_004196314.1\|76941_78240_-	MFS transporter	NA	NA	NA	NA
WP_004196325.1\|78473_79232_-	hypothetical protein	NA	NA	NA	NA
WP_004196315.1\|79285_80206_-	hypothetical protein	NA	NA	NA	NA
WP_004196359.1\|80268_80640_-	hypothetical protein	NA	NA	NA	NA
WP_008460269.1\|81040_81964_+	chromate resistance protein	NA	NA	NA	NA
WP_008460270.1\|81917_83297_+	chromate efflux transporter	A0A219VHC2	Ochrobactrum_phage	1.6e-27	64.6
WP_013087175.1\|83327_84017_-	hypothetical protein	NA	NA	NA	NA
WP_008460272.1\|84030_84768_-	HupE/UreJ family protein	NA	NA	NA	NA
WP_009651956.1\|84811_85177_-	hypothetical protein	NA	NA	NA	NA
WP_087451024.1\|85212_86333_-\|transposase	IS3-like element ISSen4 family transposase	S5WIU1	Leptospira_phage	1.7e-51	42.8
WP_004196370.1\|86652_86892_+	type II toxin-antitoxin system antitoxin RelB	A0A2H4JBG1	uncultured_Caudovirales_phage	9.1e-19	54.4
WP_000323025.1\|86891_87179_+	type II toxin-antitoxin system mRNA interferase RelE	A0A2H4JBF4	uncultured_Caudovirales_phage	1.4e-29	66.0
WP_013087178.1\|88351_88510_+	type I toxin-antitoxin system Hok family toxin	NA	NA	NA	NA
WP_044157807.1\|89385_89700_+	hypothetical protein	NA	NA	NA	NA
WP_013087181.1\|89760_90222_+	hypothetical protein	NA	NA	NA	NA
WP_013087182.1\|90309_90510_+	hypothetical protein	NA	NA	NA	NA
WP_013087183.1\|90550_91342_+	N-6 DNA methylase	NA	NA	NA	NA
WP_013087184.1\|91383_91719_+	hypothetical protein	NA	NA	NA	NA
WP_032662330.1\|92407_92701_+	hypothetical protein	NA	NA	NA	NA
WP_013087187.1\|92717_93539_+	DUF945 domain-containing protein	A0A2C9CX26	Yersinia_phage	1.8e-50	42.9
WP_032662327.1\|93567_94107_-	lytic transglycosylase domain-containing protein	NA	NA	NA	NA
WP_013087191.1\|94680_95076_+	hypothetical protein	NA	NA	NA	NA
WP_013087192.1\|95108_95750_-	Arc family DNA-binding protein	NA	NA	NA	NA
WP_013087194.1\|95946_96300_+	conjugal transfer protein TraA	NA	NA	NA	NA
WP_013087195.1\|96303_96606_+	type IV conjugative transfer system protein TraL	NA	NA	NA	NA
WP_151884563.1\|96611_97193_+	conjugal transfer protein TraE	NA	NA	NA	NA
WP_013087200.1\|98903_99188_+	hypothetical protein	NA	NA	NA	NA
WP_013087202.1\|99638_100127_+	hypothetical protein	NA	NA	NA	NA
WP_013087204.1\|100477_101020_+	type IV conjugative transfer system lipoprotein TraV	NA	NA	NA	NA
WP_013087205.1\|101016_101271_+	hypothetical protein	NA	NA	NA	NA
WP_151884564.1\|102511_104050_+	conjugal transfer protein TraI	NA	NA	NA	NA
WP_013087230.1\|104077_104863_+	DsbA family protein	NA	NA	NA	NA
WP_013087231.1\|104963_105515_+	hypothetical protein	NA	NA	NA	NA
WP_023338064.1\|105505_105922_+	hypothetical protein	NA	NA	NA	NA
WP_013087234.1\|106134_107112_-\|integrase	tyrosine-type recombinase/integrase	A0A1P8DJ76	Virus_Rctr85	1.7e-47	39.7
109299:109313	attR	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

2. NZ_CP042540

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_CP042540_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP042540_1

1548316-1548404

Orphan

I-F

Consensus_repeat	Method
GTTCACTGCCGGGCAGGCAGCTTAGAAAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP042540_1

>merge|NZ_CP042540|1|1548316-1548404|CRISPRCasFinder
GTTCACTGCCGGGCAGGCAGCTTAGAAATACGGCGACACCGACACGCGCCAGCGTGTTTTGTTCACTGCCGGGCAGGCAGCTTAGAAAT

>NZ_CP042540|1|1|1548316-1548404|CRISPRCasFinder
GTTCACTGCCGGGCAGGCAGCTTAGAAAT	ACGGCGACACCGACACGCGCCAGCGTGTTTT
GTTCACTGCCGGGCAGGCAGCTTAGAAAT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP042540.1\|WP_017384852.1\|1542724_1543738_-\|NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|223528
NZ_CP042540.1\|WP_017384851.1\|1545277_1546279_-\|low-specificity-L-threonine-aldolase	unknown	unknown	gnl\|CDD\|236710
NZ_CP042540.1\|WP_015571003.1\|1535431_1537348_+\|type-II-secretion-system-protein-GspD	unknown	unknown	gnl\|CDD\|274175
NZ_CP042540.1\|WP_032103428.1\|1552693_1553389_-\|aquaporin-Z	unknown	unknown	gnl\|CDD\|235453
NZ_CP042540.1\|WP_045329343.1\|1549820_1551473_-\|hydroxylamine-reductase	unknown	unknown	gnl\|CDD\|235391
NZ_CP042540.1\|WP_039271209.1\|1557563_1559504_+\|macrolide-ABC-transporter-ATP-binding-protein/permease-MacB	unknown	unknown	gnl\|CDD\|182528
NZ_CP042540.1\|WP_039271225.1\|1532823_1534386_-\|peptidoglycan-binding-protein	unknown	unknown	gnl\|CDD\|366659
NZ_CP042540.1\|WP_022650708.1\|1540176_1540617_+\|type-III-secretion-system-invasion-protein-IagB	unknown	unknown	gnl\|CDD\|185228
NZ_CP042540.1\|WP_017384850.1\|1546317_1548036_-\|ubiquinone-dependent-pyruvate-dehydrogenase	unknown	unknown	gnl\|CDD\|181661
NZ_CP042540.1\|WP_006174393.1\|1560063_1560384_+\|ATP-dependent-Clp-protease-adapter-ClpS	unknown	unknown	gnl\|CDD\|178809
NZ_CP042540.1\|WP_039271219.1\|1543830_1545267_-\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187556
NZ_CP042540.1\|WP_015570988.1\|1551617_1552517_-\|lysine-exporter-LysO-family-protein	unknown	unknown	gnl\|CDD\|225287
NZ_CP042540.1\|WP_006809408.1\|1559574_1559796_-\|cold-shock-like-protein-CspD	unknown	unknown	gnl\|CDD\|184960
NZ_CP042540.1\|WP_039271214.1\|1555335_1556292_-\|DUF535-domain-containing-protein	unknown	unknown	gnl\|CDD\|377343
NZ_CP042540.1\|WP_039271212.1\|1556451_1557567_+\|macrolide-transporter-subunit-MacA	unknown	unknown	gnl\|CDD\|183211
NZ_CP042540.1\|WP_017693710.1\|1548841_1549810_-\|NADH-oxidoreductase	unknown	unknown	gnl\|CDD\|236735
NZ_CP042540.1\|WP_017693723.1\|1534686_1535418_+\|type-II-secretion-system-protein-GspC	unknown	unknown	gnl\|CDD\|273770
NZ_CP042540.1\|WP_032653093.1\|1532185_1532824_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042540.1\|WP_039271221.1\|1540751_1542578_+\|PKD-domain-containing-protein	unknown	unknown	gnl\|CDD\|381595
NZ_CP042540.1\|WP_017693708.1\|1553680_1555339_+\|ATP-dependent-endonuclease	unknown	unknown	gnl\|CDD\|226121

Protein	Function_ID	Function_description	E-value
NZ_CP042540.1\|WP_017384852.1\|1542724_1543738_-\|NAD(P)-dependent-oxidoreductase	gnl\|CDD\|223528	COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism].	1.05058e-52
NZ_CP042540.1\|WP_017384851.1\|1545277_1546279_-\|low-specificity-L-threonine-aldolase	gnl\|CDD\|236710	PRK10534, PRK10534, L-threonine aldolase; Provisional.	0
NZ_CP042540.1\|WP_015571003.1\|1535431_1537348_+\|type-II-secretion-system-protein-GspD	gnl\|CDD\|274175	TIGR02517, Putative_type_II_secretion_system_protein_D, type II secretion system protein D. In Gram-negative bacteria, proteins that have first crossed the inner member by Sec-dependent protein transport can be exported across the outer membrane by type II secretion, also called the main terminal branch of the general secretion pathway. Members of this family are general secretion pathway protein D. In Yersinia enterocolitica, a second member of this family is part of a novel second type II secretion system specifically associated with virulence (See ). This family is closely homologous to the type IV pilus outer membrane secretin PilQ (TIGR02515) and to the type III secretion system pore YscC/HrcC (TIGR02516). [Protein fate, Protein and peptide secretion and trafficking].	3.40063e-180
NZ_CP042540.1\|WP_032103428.1\|1552693_1553389_-\|aquaporin-Z	gnl\|CDD\|235453	PRK05420, PRK05420, aquaporin Z; Provisional.	8.80388e-146
NZ_CP042540.1\|WP_045329343.1\|1549820_1551473_-\|hydroxylamine-reductase	gnl\|CDD\|235391	PRK05290, PRK05290, hybrid cluster protein; Provisional.	0
NZ_CP042540.1\|WP_039271209.1\|1557563_1559504_+\|macrolide-ABC-transporter-ATP-binding-protein/permease-MacB	gnl\|CDD\|182528	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB.	0
NZ_CP042540.1\|WP_039271225.1\|1532823_1534386_-\|peptidoglycan-binding-protein	gnl\|CDD\|366659	pfam01471, PG_binding_1, Putative peptidoglycan binding domain. This domain is composed of three alpha helices. This domain is found at the N or C-terminus of a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. This family is found N-terminal to the catalytic domain of matrixins. The domain is found to bind peptidoglycan experimentally.	0.00506818
NZ_CP042540.1\|WP_022650708.1\|1540176_1540617_+\|type-III-secretion-system-invasion-protein-IagB	gnl\|CDD\|185228	PRK15328, PRK15328, type III secretion system invasion protein IagB.	3.16013e-88
NZ_CP042540.1\|WP_017384850.1\|1546317_1548036_-\|ubiquinone-dependent-pyruvate-dehydrogenase	gnl\|CDD\|181661	PRK09124, PRK09124, ubiquinone-dependent pyruvate dehydrogenase.	0
NZ_CP042540.1\|WP_006174393.1\|1560063_1560384_+\|ATP-dependent-Clp-protease-adapter-ClpS	gnl\|CDD\|178809	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed.	9.90991e-48
NZ_CP042540.1\|WP_039271219.1\|1543830_1545267_-\|SDR-family-oxidoreductase	gnl\|CDD\|187556	cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup contains atypical SDRs, one member is identified as Escherichia coli protein ybjT, function unknown. Atypical SDRs are distinct from classical SDRs. Members of this subgroup have a glycine-rich NAD(P)-binding motif consensus that generally matches the extended SDRs, TGXXGXXG, but lacks the characteristic active site residues of the SDRs. This subgroup has basic residues (HXXXR) in place of the active site motif YXXXK, these may have a catalytic role. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Atypical SDRs include biliverdin IX beta reductase (BVR-B,aka flavin reductase), NMRa (a negative transcriptional regulator of various fungi), progesterone 5-beta-reductase like proteins, phenylcoumaran benzylic ether and pinoresinol-lariciresinol reductases, phenylpropene synthases, eugenol synthase, triphenylmethane reductase, isoflavone reductases, and others. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. In addition to the Rossmann fold core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	6.55103e-142
NZ_CP042540.1\|WP_015570988.1\|1551617_1552517_-\|lysine-exporter-LysO-family-protein	gnl\|CDD\|225287	COG2431, COG2431, Predicted membrane protein [Function unknown].	2.69399e-117
NZ_CP042540.1\|WP_006809408.1\|1559574_1559796_-\|cold-shock-like-protein-CspD	gnl\|CDD\|184960	PRK14998, PRK14998, cold shock-like protein CspD; Provisional.	9.14248e-48
NZ_CP042540.1\|WP_039271214.1\|1555335_1556292_-\|DUF535-domain-containing-protein	gnl\|CDD\|377343	pfam04393, DUF535, Protein of unknown function (DUF535). Family member Shigella flexneri VirK is a virulence protein required for the expression, or correct membrane localization of IcsA (VirG) on the bacterial cell surface,. This family also includes Pasteurella haemolytica lapB, which is thought to be membrane-associated.	1.15146e-126
NZ_CP042540.1\|WP_039271212.1\|1556451_1557567_+\|macrolide-transporter-subunit-MacA	gnl\|CDD\|183211	PRK11578, PRK11578, macrolide transporter subunit MacA; Provisional.	0
NZ_CP042540.1\|WP_017693710.1\|1548841_1549810_-\|NADH-oxidoreductase	gnl\|CDD\|236735	PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent; Provisional.	0
NZ_CP042540.1\|WP_017693723.1\|1534686_1535418_+\|type-II-secretion-system-protein-GspC	gnl\|CDD\|273770	TIGR01713, Type_II_secretion_system_protein_C, type II secretion system protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens. [Protein fate, Protein and peptide secretion and trafficking].	1.37047e-32
NZ_CP042540.1\|WP_039271221.1\|1540751_1542578_+\|PKD-domain-containing-protein	gnl\|CDD\|381595	cd00325, chitinase_GH19, Glycoside hydrolase family 19, chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Glycoside hydrolase family 19 chitinases are found primarily in plants (classes I, III, and IV), but some are found in bacteria. Class I and II chitinases are similar in their catalytic domains. Class I chitinases have an N-terminal cysteine-rich, chitin-binding domain which is separated from the catalytic domain by a proline and glycine-rich hinge region. Class II chitinases lack both the chitin-binding domain and the hinge region. Class IV chitinases are similar to class I chitinases, but they are smaller in size due to certain deletions. Despite lacking any significant sequence homology with lysozymes, structural analysis reveals that family 19 chitinases, together with family 46 chitosanases, are similar to several lysozymes including those from T4-phage and from goose. The structures reveal that the different enzyme groups arose from a common ancestor glycohydrolase antecedent to the prokaryotic/eukaryotic divergence.	2.39359e-72
NZ_CP042540.1\|WP_017693708.1\|1553680_1555339_+\|ATP-dependent-endonuclease	gnl\|CDD\|226121	COG3593, COG3593, Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair].	0

>NZ_CP042540.1|WP_017384850.1|1546317_1548036_-|ubiquinone-dependent-pyruvate-dehydrogenase
MKQTVAAYIAKTLEQAGVKRIWGVTGDSLNGLSDSLNKMKTIEWMPTRHEEVAAFAAGAEAQLTGELAVCAGSCGPGNLHLINGLFDCHRNHVPVLAIAAHIPSSEIGSGYFQETHPQELFRECSHYCELVSSPEQIPQVLAIAMRKAILNRGVSVVVLPGDVALKAAPETATTHWYSAPQPTITPAEEELKKLAQLLRYSSNIALMCGSGCAGAHKELVEFAGKLKAPVVHALRGKEHVEYDNPYDVGMTGLIGFSSGFHTMMNADTLILLGTQFPYRAFYPTDAKIIQIDINPGSIGAHSKVDMALIGDIKSTLAALLPLLEEKTDRKFLDKALSDYRDARKGLDDLAKPSEKAIHPQYLAQQISHFADDDAIFTCDVGTPTVWAARYLKMNGKRRLLGSFNHGSMANAMPQALGAKATAPERQVVAMCGDGGFSMLMGDFLSVAQMKLPLKIVVFNNSVLGFVAMEMKAGGYLTDGTELHDTNFARIAEACGITGIRVEKASEVDDALQRAFTIDGPVLVDVVVAKEELAIPPQIKLEQAKGFSLYMLRAIISGRGDEVIELAKTNWLR
>NZ_CP042540.1|WP_017384851.1|1545277_1546279_-|low-specificity-L-threonine-aldolase
MIDLRSDTVTRPGRAMLEEMMAAPVGDDVYGDDPTVNELQRYAAELSGKEAALFLPTGTQANLVALLSHCERGEEYIVGQGAHNYLYEAGGAAVLGSIQPQPIDAAPDGSLPLAKVAAKIKADDIHFARTKLLSLENTHNGKVLPREYLKAAWDFTRERKLGLHVDGARIFNAVVEYGCELKEITQYCDSFTICLSKGLGTPVGSLLVGNADYIRRANRWRKMTGGGMRQAGILAAAGLYALKNNVSRLKDDHDNAAWMAAQLREIGADVMRHDTNMLFVRVGDEHAAALGDFMKARGVLINASPVVRLVMHLDVNREQLTEVVKHWQAFLQR
>NZ_CP042540.1|WP_039271219.1|1543830_1545267_-|SDR-family-oxidoreductase
MPQRILVLGASGYIGQHLTTALSQQGHQVLAAARNTERLQKLHLPGVTCHNVDLNWPKALPALLEGVDTLYYLVHSMGEGGDFIAHERQVAMNVRDALRQTPVKQVIFLSSLQAPEHEQSDHLRARQLTAETLRSAHIPVTELRAGIIVGAGSAAFEVMRDMVYNLPVLTPPRWVRSRTTPIALENLLHYLVALLDHPAEQHRVLEAAGPEVLSYQAQFEHFMRVSGRRRWLIPIPFPTRWISVWFLNVITSVPPTTAKALIQGLKHDLLADDRALRALIPQELIRFDDAVRNTLKEEEKLVNSSDWGYDAQAFARWRPEYGYYPKQAGCTVKTTASLAALWEVVNQIGGKERYFFGNILWQTRGALDLLVGHRLAKGRPAHPWLKVGDTVDSWKVIIVEPEKQLALLFGMKAPGLGRLCFTLKDNGDHRELDVRAWWHPHGMPGLFYWLLMIPAHLFIFRGMAKRIAQLAEEKRENN
>NZ_CP042540.1|WP_017384852.1|1542724_1543738_-|NAD(P)-dependent-oxidoreductase
MKVLVTGATSGLGRNAVEFLRNKGISVRATGRNEAMGKLLQKMGAEFVHADLTELVSSQAKVMLAGIDTLWHCSSFTSPWGTQEAFDLANVRATRRLGEWAVAWGVRNFIHISSPSLYFDYHHHRDIQEDFRPARFACEFARSKAAGEEVIDLLAQSNPHTRFTVLRPQSLFGPHDKVFIPRLAQMMHHYGSVLLPRGGDALVDMTYYENAVHAMWLASQPECDKLVSGRAYNITNGEPCTLRSIVQRLIDELKIDCRIRSVPYPMLDMIARSMERFGSKSAKEPALTHYGVSKLNFDFTLDISRAENELGYKPIVSLDEGIVRTAAWLRDHGKLHR
>NZ_CP042540.1|WP_039271221.1|1540751_1542578_+|PKD-domain-containing-protein
MNKRTLLSVLIAGACVAPFMAQAANLKETSSEPYTIKASDLAKKEKELTDFPLMASVKETIQTLDNAQVELIEPGRAANPDNVKRVEGIVKASDWEYLFPLRAQAYTYSNFLKAVGKFPALCKTYNDGRDSDAICRKELATMFAHFAQETGGHESWRPEAEWRQALVHVREMGWSEGQKGGYNGECNPDVWQGQTWPCGKDKDGDFLSYFGRGAKQLSYNYNYGPFSEAMYGDVRTLLDKPELVADTWLNLASAIFFFAYPQPPKPSMLQVIDGTWQPNDHDKANGLVPGFGVTTQIINGGVECGGPTEIAQSQNRIKYYKEFANYLKVPVPANEVLGCANMKQFDEGGAGALKIYWEQDWGWSADTPDGKTYSCQLVGYQTPFSAFKEGDYSKCVQKFFNVKIVNDDGSSVTPDETPVTPTPTPSGDETPAPTPTPTPDETPVEPVVVNHAPVAQIAGPIGAVEAGAQVSLSAEGSTDPDGNKLTYTWRSQDGQTVTGQDKAVVTFTAPESATAQQYEVSLTVSDGELSSTTSYLLNVKAKAATPSGEDTSYPAWSANSKYNAGDIVNNHGKLFQCKPFPYSGWCNNSPTYYEPGAGLAWAEAWTAL
>NZ_CP042540.1|WP_022650708.1|1540176_1540617_+|type-III-secretion-system-invasion-protein-IagB
MKKLILLLLIISQSALANCWDKAAHYYHVDPYLLYAIANVESGMNPYAVGQNRDGTRDVGLMQINSSHFTALESRGIDEYRLITEPCTSIMVGASILSGMIRVYGYNWEAVGAYNAGLKKENYPQRMKYAHKVWAKYQQLKLAARY
>NZ_CP042540.1|WP_015571003.1|1535431_1537348_+|type-II-secretion-system-protein-GspD
MKKFPWACVALTALSLYSSSLLAANFSASFKNTDIREFIDTVGRNLNKTILVDPSVQGTVSVRTYNVLTEDEYYQFFLSVLDLYGLSVIPMDNGMVKVVRSSVARTAGAPLADSKNPGKGDEIITRVVRMENVPVRELAPLLRQLNDATGIGNVVHFEPSNVLLLTGKASVVNRLVDLVQRVDKDGIQRREIIPLRFASAKELSDMLNNLNNEEQKGQNAPQLATKVVADDETNSLVISGSEDARARTRSLIHQLDREQNNEGNTRVFYLKYASATKVVPVLTGIGEQLKDKPGAAKAKTASASTDLNITADESTNSLVITAQPNVMNSLEKVIDKLDIRRPQVLVEAIIAEVQDGNGLDLGVQWTSKHGGVQFGATGLPISQIKNGTMKGASFTGLATGFFNGDFGALVTALSTDGKNDILSTPSVVTLDNKEASFNVGQDVPVLSGSQTTSGDNVFNSVERKTVGTKLKIVPQINDGDMIHLKIEQEVSSVDNSATEDSSLGPTFNTRTINNEVMVHSGQTVVLGGLMENVTKQSVSKVPLLGDIPLVGQLFRYTSQDTSKRNLMVFIHTTVLRDDDNYSAASKEKYDQIRVRQMQRVEEKKLGIVEPSDNAVLPAFPAASTAPVKTHAARNPFKE
>NZ_CP042540.1|WP_017693723.1|1534686_1535418_+|type-II-secretion-system-protein-GspC
MFLLLIFCGQQGYLTFKDYKKVMNKFANSDLQPLKKTREDKPFTLFTAAVRQENLSAAAKPPLAAEIEGIVRSDDAWLSFAVIKTPGGQRSYREGEPLAGFNDAFIQEINKDNVVVNYEGATQVLALNKPDYFKGGVESGPVTKSTKDAGAESVHLDDYLVLKPIIEKGRLEGYRINPRNASAFYSQSGLEKGDVAIQVNSVDMTDEAKAKSIIANWSKMKEAEVIVRRHAHLENIRVNVLNN
>NZ_CP042540.1|WP_039271225.1|1532823_1534386_-|peptidoglycan-binding-protein
MYQSHFNFKNPPFRTITRLSGDFLVPYHQDVFNLLKEKTQLAGIIGLFCDDAPLLGLFIDALKASNHTVLAINAFPKLSASSLLYKLNPGTKAIKDRMQAVDAVLRQWQEGKAKSRVVTIAHAEAMKESCREVLGTLLTRAQELNFRLAVVLTGNADQEILLKQPELREYTHTHHALRPLTCREYLSYVQAQCEEHGCENSPLPPARVRKMHTLTKGNISKLNALAHLSMLAAWTERAAQVSPRHLRLAAGEILPAQKHGKRLATVGLFASVLFAACGWYLTSSIGARLPIQLPVPVSWKQQTPKPEAAVVPVIDNEMVNQPDAMHQLYLMWGYDASADDALCQNAAKVNLMCKQGNASPEALAQQGYPWVSELKTSGHLNYAVVARVGDTSIDLLMNNRTWQVSRSWFNRHATGNFTQLHRLTPEGKDAIGAASDSKDMAWLDQQLSLALSQPETHAQIWTTEMMKRTREFQQKMHLHVDGIPGEDTLMQLMRVTNSTPGVLIQATRTTPDAKMQEKKA
>NZ_CP042540.1|WP_032653093.1|1532185_1532824_-|hypothetical-protein
MSTICLAAQRSYTTGEAVWFSYRLPSLKNVFGKTALWLVGLCVMLVVGLYMHVYWNLHHPAPEPVNASVAKPETQLSDMHYVYVSKPFPHPQPKAAPVPVDVPSMQDLPINSDDGDWQQAPDGAVPHDASRDTLPGTEAHEHDNAPASTGSEESSLTELFKQALKEQEQDYSQGKIPAPPVDETQDNSQASVKNSGNSRSPFSEKGDGGSRY
>NZ_CP042540.1|WP_017693710.1|1548841_1549810_-|NADH-oxidoreductase
MTMPTSQCPWRMQVHHIHQETPDVWTLSLLCHDYYPYRAGQYALVSVRNSADTLRAYTISSTPGVSEYITLTVRRIDDGAGSEWLTRDVKRGDYIWLSDAQGEFTCDDKTEDKFLLLAAGCGVTPIMSMRRWLAKYRPQANVQVIFSVRSPEDVIFAEEWRNYPVTLVAEHNATHGFVAGRLSRELLQSVPDIANRIVMTCGPAPYMEIVEKEVKALGVTRFFKEQFFTPVAEAATSGMKFTKLQPAQTFFGRVGTTLLEALESNNVPVAAACRAGVCGCCKTKVVSGEYTVTSTMTLTDAEIAEGYVLACSCHPQGDLVLA
>NZ_CP042540.1|WP_045329343.1|1549820_1551473_-|hydroxylamine-reductase
MFCVQCEQTIRTPAGNGCSYAQGMCGKTAETSDLQDLLIAALQGLSAWAFKAREYGIVDHYVDSFAPRAFFSTLTNVNFDSPRIVGYAREAIALREALKAQCLNADASARVDNPMAELQLVSDDLGELQRQAAEFTPNKDKAAIGENILGLRLLCLYGLKGAAAYMEHAHVLGQYDNAIYAQYHKIMAWLGTWPSDMNALLECSMEIGQMNFKVMSILDAGETSTYGHPTPTQVNVKATEGKCILISGHDLKDLYNLLKQTEGTGVNVYTHGEMLPAHGYPELRKFKHLIGNYGSGWQNQQVEFARFPGPIVMTSNCIIDPTVGAYDDRIWTRSIVGWPDVSHLEGDDFGPVIAQAQQMAGFPYSEIPHLITVGFGRETLLGAADSLIDLVSREKLRHIFLIGGCDGARGERNYFTDFATRVPEDCLILTLACGKYRFNKLDFGNIEGLPRLVDAGQCNDAYSAIILAVTLAEKLGCGVNDLPLSLVLSWFEQKAIVILLTLLSLGVTNIVTGPTAPGFLTPDLLAILNEKFGLRSVTNVEDDMKQLLSA
>NZ_CP042540.1|WP_015570988.1|1551617_1552517_-|lysine-exporter-LysO-family-protein
MFSGLLIILLPLIVGYLIPLRHESALKLINRFLSWIVYVILFFMGISLAFLDNLATNLLSILHYSAVTVVVILLCNIAALFWLERTIPWKNHHHQEKLPSRIAMALESLKLCGVVVLGFLLGLTGWAFLQHATEASEYTLIFLLFLIGIQLRNNGMTLKQIVLNRRGMMVAVIVVASSLAGGVINAFILDLPLKTSLAMASGFGWYSLSGILLTESFGPVIGSAAFFNDLARELIAIMLIPGLVRRSRSTALGLCGATSMDFTLPVLQRSGGLEMVPAAIVHGFILSLLVPILMAFFSA
>NZ_CP042540.1|WP_032103428.1|1552693_1553389_-|aquaporin-Z
MFRKLAAECFGTFWLVFGGCGSAVLAAAFPELGIGFVGVALAFGLTVLTMAFAVGHISGGHFNPAVTLGLWAGGRFPAKDIIGYIIAQVIGGIIAAAVLYVIASGKAGFDAAASGFASNGFGEHSPGGYSMLSAIVIEIVLTAGFLLVIHGATDKYAPAGFAPIAIGLALTLIHLISIPVTNTSVNPARSTAVAIFQGGWALEQLWLFWVMPIIGGILGGVLYRTLLEKHD
>NZ_CP042540.1|WP_017693708.1|1553680_1555339_+|ATP-dependent-endonuclease
MLLERVEIVGFRGINRLSLQLEQNNVLIGENAWGKSSLLDALTLLLSPEENLYHFVHDDFWFPPGDVNGREKHLHIILTFRESEPGRHRVRRFRPMSPCWVPCEDGFQRIFYRLEGEMAQNDGVLTLREFLDEKGNPIPLDNIDELARHLIRLSPVLRLRDARFMRRIRNGTVPNMPEVEVTARELDFLARELVSRPQNLTDGQIRQGLSAMVQLLEHYFSEQGTGQARHRLMRRRSHDEQRSWRYLDIINRMIDRPGGRTHRVILLGLFSTLLQAKGTVRLDRDARPLLLVEDPETRLHPIMLSVAWHLLNLLPLQRVTTTNSGELLSLTPVEYVCRLVRESSRVTAYRLGPGGLNAEDGRRIAFHIRFNRASSLFARCWLLVEGETETWVINELARQCGHHFDAEGIKVIEFAQSGLKPLIKFARRMGIEWHVLVDGDEAGKKYAATVRSLLNNDREEEREHLTALPAMDMEHFMYRQGFDDVFHRVAMIPVDVPMNMRRVIAKAIHRSSKPDLAIEVATEAGRRGVESVPTLLRKMFSRVLWLARGRAD
>NZ_CP042540.1|WP_039271214.1|1555335_1556292_-|DUF535-domain-containing-protein
MSSIVDTPYSTLPQPKSGWQLFKSLASGSLTPGLAWQNPAYRRKFMLRSLATPFTTARLLGNLAKQPRLMQILRVQPGLPCRLHRPWLTVNMGRQTTLDALNDHYEMMSRHLPASLLNGYLSSQGIMLVTLTGKEEQQFSVRLNADAFLDKEGEATLTFCDHQNTVLAELTFTLCTYQGKPTLFIGGMQGAKAHVPHEHIQLATKACHGLFPKRLLVEAVMTLAGAFPVEQILAVSNATHIYRSWRYRKKKEGKLLADYDSFWRSLGGQQQDNGNFALPLTMPRKPMEEIASKKRSEYRRRYALLDSLLQQVSQATAR
>NZ_CP042540.1|WP_039271212.1|1556451_1557567_+|macrolide-transporter-subunit-MacA
MNLKGKRRKLFLLLAVVVLAGGFWLWKVLNAPVPQYQTLIVRPGELQQNVLATGKLDALRKVDVGAQVSGQLKTLSVEIGDKVKKGQLLGVIDPEQAQNQIREVEATLMELRAQRAQAQAERNLAQVTLTRQQALAKTQSISKQDLDTAATELAVKQAQIGTIDAQIKRNQASLDTAKTNLDYTQIVAPMAGEVTQITTLQGQTVIAAQQAPNILTLADMSTMLVKAQVSEADVIHLKPGQKAWFTVLGDPQTRYEGVLKDILPTPEKVNDAIFYYARFEVPNPQGVLRLDMTAQVHIQLTGVKNVLTVPLSALGESAGDNRYKVKVLRNGETREREVVIGARNDTDVVVVKGLEEGEEVVTSETLPGAAQ
>NZ_CP042540.1|WP_039271209.1|1557563_1559504_+|macrolide-ABC-transporter-ATP-binding-protein/permease-MacB
MTALLELNDIRRSYPSGDGPVEVLKGISLRVEAGEMVAIVGASGSGKSTLMNILGCLDKPTSGTYRVAGTDVSTLDGDALAKLRREHFGFIFQRYHLLSHLSAAQNVEVPAVYAGVERKKRLERAKALLTRLGLEERVDYQPSQLSGGQQQRVSIARALMNGGQVILADEPTGALDSHSGEEVMAILHQLRDQGHTVIIVTHDPQVAAQAERIIEIHDGELVSNPPPRQSRAAAPKEALPASTGWGQFSSGFREALTMAWLAMAANKMRTLLTMLGIIIGIASVVSIVVVGDAAKQLVLADIRAIGTNTIDVYPGKDFGDDEPQYQQALKYDDLAAIQKQPWVNSATPAVSQNLRLRYGNIDVAASANGVSGDYFNVYGMTFSEGATFNAEQLAGRAQVVVLDANSRRQLFPNNTRVVGEVILVGNMPATVIGVAEEKQSMFGSSKILRVWLPYSTISGRIMGQSWLNSITVRVKEGYDSALAEQQLERLLTLRHGKKDFFTWNMDGLLKTAEKTTRTLQLFLTLVAVISLVVGGIGVMNIMLVSVTERTREIGIRMAVGARASDVLQQFLIEAVLVCLVGGAMGIALSMMIAFALQLFLPGWEIGFSPMAILTAFLCSTFTGILFGWLPARNAARLDPVDALARE
>NZ_CP042540.1|WP_006809408.1|1559574_1559796_-|cold-shock-like-protein-CspD
MEMGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDVHQGPKGNHASLIVPVEAETVA
>NZ_CP042540.1|WP_006174393.1|1560063_1560384_+|ATP-dependent-Clp-protease-adapter-ClpS
MGKTNDWLDFDQLAEDKVRDALKPPSMYKVMLMNDDYTPMEFVIDVLQKFFSYDVERATQLMLTVHYRGKAICGIFTAEVAETKVAMVNDYARENEHPLLCTLEKA

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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_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	JF974302	Vibrio phage VBpm10, * SEQUENCING IN PROGRESS *, 8 unordered pieces	21037-21067	6	0.806
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592513	Vibrio phage 1.142.O._10N.261.49.E11, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592412	Vibrio phage 1.028.O._10N.286.45.B6, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592527	Vibrio phage 1.159.O._10N.261.46.F12, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592588	Vibrio phage 1.217.O._10N.261.45.A1, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592589	Vibrio phage 1.219.O._10N.261.45.E2, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592524	Vibrio phage 1.156.O._10N.261.45.A6, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592669	Vibrio phage 2.159.A._10N.261.46.F12, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592670	Vibrio phage 2.159.B._10N.261.46.F12, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	MG592507	Vibrio phage 1.136.O._10N.261.45.E11, partial genome	26631-26661	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NZ_CP043441	Cupriavidus campinensis strain MJ1 plasmid unnamed1, complete sequence	1534665-1534695	7	0.774
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NC_015184	Agrobacterium sp. H13-3 plasmid pAspH13-3a, complete sequence	62534-62564	8	0.742
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NZ_CP035511	Haematobacter massiliensis strain OT1 plasmid pOT1-1, complete sequence	283146-283176	8	0.742
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NZ_CP054620	Azospirillum oryzae strain KACC 14407 plasmid unnamed5, complete sequence	22328-22358	9	0.71
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NC_013859	Azospirillum sp. B510 plasmid pAB510e, complete sequence	475099-475129	9	0.71
NZ_CP042540_1	1.1\|1548345\|31\|NZ_CP042540\|CRISPRCasFinder	1548345-1548375	31	NZ_CP054621	Azospirillum oryzae strain KACC 14407 plasmid unnamed6, complete sequence	714186-714216	10	0.677

1. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to JF974302 (Vibrio phage VBpm10, *** SEQUENCING IN PROGRESS ***, 8 unordered pieces) position: , mismatch: 6, identity: 0.806

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcattgt	Protospacer
**********.** ********* *..** *

2. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592513 (Vibrio phage 1.142.O._10N.261.49.E11, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

3. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592412 (Vibrio phage 1.028.O._10N.286.45.B6, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

4. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592527 (Vibrio phage 1.159.O._10N.261.46.F12, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

5. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592588 (Vibrio phage 1.217.O._10N.261.45.A1, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

6. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592589 (Vibrio phage 1.219.O._10N.261.45.E2, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

7. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592524 (Vibrio phage 1.156.O._10N.261.45.A6, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

8. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592669 (Vibrio phage 2.159.A._10N.261.46.F12, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

9. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592670 (Vibrio phage 2.159.B._10N.261.46.F12, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

10. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to MG592507 (Vibrio phage 1.136.O._10N.261.45.E11, partial genome) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
acggcgacactgaaacgcgccagagcatagt	Protospacer
**********.** ********* *..*  *

11. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NZ_CP043441 (Cupriavidus campinensis strain MJ1 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.774

acggcgacaccgacacgcgccag----cgtgtttt	CRISPR spacer
acggcgagaccgtcacgcgccaggtgccggg----	Protospacer
******* **** **********    ** *

12. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NC_015184 (Agrobacterium sp. H13-3 plasmid pAspH13-3a, complete sequence) position: , mismatch: 8, identity: 0.742

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
gcggcgacaccgacactcgcccgcgatctca	Protospacer
.*************** **** ***  .*.

13. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NZ_CP035511 (Haematobacter massiliensis strain OT1 plasmid pOT1-1, complete sequence) position: , mismatch: 8, identity: 0.742

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
tcggcgatgccgacacgcgccagcagttcta	Protospacer
 ******..***************.  *.*

14. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NZ_CP054620 (Azospirillum oryzae strain KACC 14407 plasmid unnamed5, complete sequence) position: , mismatch: 9, identity: 0.71

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
ccggcgacatcgacacgcggcagcccaggat	Protospacer
 ********.********* **** ..   *

15. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NC_013859 (Azospirillum sp. B510 plasmid pAB510e, complete sequence) position: , mismatch: 9, identity: 0.71

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
ccggcgacaccgacacccggcagcccaggat	Protospacer
 *************** ** **** ..   *

16. spacer 1.1|1548345|31|NZ_CP042540|CRISPRCasFinder matches to NZ_CP054621 (Azospirillum oryzae strain KACC 14407 plasmid unnamed6, complete sequence) position: , mismatch: 10, identity: 0.677

acggcgacaccgacacgcgccagcgtgtttt	CRISPR spacer
ggggcgactccgacccgcgccagcgccgcag	Protospacer
. ****** ***** **********.  .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1617587 : 1630443

Enterobacteria_phage(27.27%)

tRNA,tail,integrase

attL 1609362:1609377|attR 1636396:1636411

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1609362:1609377	attL	NA	NA	NA	NA
WP_072134628.1\|1617587_1618643_-	porin OmpF	Q1MVN1	Enterobacteria_phage	2.3e-90	50.1
WP_015570955.1\|1619252_1620653_-\|tRNA	asparagine--tRNA ligase	A0A2P1EMB4	Moumouvirus	1.9e-79	37.3
WP_015570954.1\|1620821_1622024_-	nicotinate phosphoribosyltransferase	A0A2L0UZQ6	Agrobacterium_phage	7.6e-45	31.9
WP_032665345.1\|1622208_1623501_-\|integrase	site-specific integrase	S4TSP2	Salmonella_phage	7.2e-243	95.6
WP_015570952.1\|1623545_1623794_-	excisionase family protein	S4TND0	Salmonella_phage	5.4e-38	91.4
WP_032665346.1\|1623944_1624169_-	hypothetical protein	A0A1B5FPG2	Escherichia_phage	8.3e-14	58.3
WP_039271183.1\|1624169_1624559_-	hypothetical protein	A0A286S1S2	Klebsiella_phage	2.1e-44	68.0
WP_039271179.1\|1625135_1625966_-\|tail	tail fiber domain-containing protein	A0A192Y7T9	Enterobacteria_phage	9.3e-34	31.1
WP_032665862.1\|1626048_1626597_+	recombinase family protein	A0A1S6L009	Salmonella_phage	4.5e-77	80.0
WP_032665393.1\|1626712_1627135_+	hypothetical protein	K7P834	Enterobacteria_phage	6.0e-21	44.1
WP_032665395.1\|1627901_1629368_+	hypothetical protein	NA	NA	NA	NA
WP_039271176.1\|1629516_1630443_+	helix-turn-helix domain-containing protein	A0A077SL42	Escherichia_phage	6.2e-71	45.4
1636396:1636411	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1894294 : 1908151

Salmonella_phage(40.0%)

terminase,lysis

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_080373385.1\|1894294_1895443_+	DNA cytosine methyltransferase	M1PSQ0	Streptococcus_phage	4.1e-32	29.0
WP_063418870.1\|1895403_1896408_-	hypothetical protein	NA	NA	NA	NA
WP_080373378.1\|1896400_1897843_-	ATP-binding protein	NA	NA	NA	NA
WP_006811588.1\|1898264_1898498_+	DinI family protein	A0A0M4REN2	Salmonella_phage	5.2e-27	79.2
WP_017693510.1\|1898608_1898818_+	hypothetical protein	NA	NA	NA	NA
WP_039271020.1\|1898902_1899502_+	DUF1367 family protein	H6WRY7	Salmonella_phage	1.3e-98	87.3
WP_032645668.1\|1899507_1899708_+	hypothetical protein	H6WRY8	Salmonella_phage	3.7e-21	66.7
WP_039271017.1\|1899710_1899992_+	DUF1364 family protein	K7P7Q1	Enterobacteria_phage	9.3e-47	98.9
WP_039271015.1\|1899988_1900345_+	RusA family crossover junction endodeoxyribonuclease	K7P6W0	Enterobacteria_phage	3.1e-63	94.9
WP_039271013.1\|1900341_1900479_+	YlcG family protein	A0A0M5M7B2	Salmonella_phage	2.1e-07	71.1
WP_039271011.1\|1900478_1901294_+	antitermination protein	K7P7B9	Enterobacteria_phage	8.3e-128	84.9
WP_039271009.1\|1901452_1901824_-	hypothetical protein	NA	NA	NA	NA
WP_039271007.1\|1901939_1902164_+\|lysis	lysis protein	M9NZI9	Enterobacteria_phage	2.2e-30	87.8
WP_039271005.1\|1902141_1902636_+	lysozyme	M9P0E5	Enterobacteria_phage	2.1e-89	96.3
WP_039271003.1\|1902632_1903100_+\|lysis	lysis protein	A0A1V0E5Q6	Salmonella_phage	4.2e-52	67.1
WP_039271001.1\|1903134_1903743_+	DUF2441 domain-containing protein	I6PCV9	Cronobacter_phage	9.7e-73	60.4
WP_039270999.1\|1903987_1904344_-	hypothetical protein	NA	NA	NA	NA
WP_151548414.1\|1904444_1905425_+\|terminase	terminase small subunit	I6X6R5	Burkholderia_virus	4.7e-37	42.2
WP_039270990.1\|1906461_1906881_+	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	1.4e-35	56.7
WP_039270988.1\|1906882_1908151_+	Y-family DNA polymerase	I6RSM4	Salmonella_phage	8.1e-231	92.4

DBSCAN-SWA_3

2653358 : 2660611

Escherichia_phage(16.67%)

transposase,integrase

attL 2653023:2653054|attR 2660694:2660725

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2653023:2653054	attL	NA	NA	NA	NA
WP_039270560.1\|2653358_2653946_-	hypothetical protein	S5M7T3	Escherichia_phage	3.1e-52	61.0
WP_039270559.1\|2653967_2654438_-	SocA family protein	K4NZT7	Burkholderia_phage	7.6e-17	30.4
WP_039270558.1\|2654759_2655077_-	hypothetical protein	K7PGV5	Enterobacterial_phage	4.9e-20	48.1
WP_039270557.1\|2655344_2655605_-	hypothetical protein	NA	NA	NA	NA
WP_053337474.1\|2655588_2655936_-	hypothetical protein	NA	NA	NA	NA
WP_127850788.1\|2656012_2656210_-	hypothetical protein	NA	NA	NA	NA
WP_039270553.1\|2656239_2656674_-	hypothetical protein	NA	NA	NA	NA
WP_088581786.1\|2656806_2657954_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	5.0e-147	92.6
WP_039270551.1\|2658685_2659201_-	hypothetical protein	NA	NA	NA	NA
WP_080338025.1\|2659433_2659889_-	hypothetical protein	A0A1W6JP37	Morganella_phage	7.3e-17	35.7
WP_080338024.1\|2659921_2660611_+\|integrase	tyrosine-type recombinase/integrase	A0A1V0E5M7	Salmonella_phage	4.2e-16	40.6
2660694:2660725	attR	NA	NA	NA	NA

DBSCAN-SWA_4

2917984 : 2927231

Escherichia_phage(25.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_032103476.1\|2917984_2918596_+	bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase HisIE	A0A2H4UVM0	Bodo_saltans_virus	1.6e-14	29.3
WP_039270442.1\|2918635_2919616_-	LPS O-antigen chain length determinant protein WzzB	NA	NA	NA	NA
WP_039270440.1\|2919807_2920812_+	NAD-dependent epimerase	A0A2K9L0I7	Tupanvirus	9.5e-33	28.7
WP_023294998.1\|2920860_2922027_-	UDP-glucose 6-dehydrogenase	A0A1J0FA55	Only_Syngen_Nebraska_virus	1.6e-111	53.5
WP_023294999.1\|2922280_2923687_-	NADP-dependent phosphogluconate dehydrogenase	M4QQM4	Ostreococcus_lucimarinus_virus	5.2e-37	28.3
WP_023295000.1\|2923822_2924371_-	dTDP-4-dehydrorhamnose 3,5-epimerase	A0A291LA62	Escherichia_phage	9.1e-54	54.4
WP_032682169.1\|2924381_2925272_-	dTDP-4-dehydrorhamnose reductase	A0A1D7XFA3	Escherichia_phage	2.8e-28	31.3
WP_023295002.1\|2925284_2926151_-	glucose-1-phosphate thymidylyltransferase RfbA	I7I009	Enterobacteria_phage	8.3e-110	66.0
WP_032103484.1\|2926166_2927231_-	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	6.4e-104	54.4

DBSCAN-SWA_5

3394473 : 3436220

Escherichia_phage(30.43%)

terminase,coat,holin,integrase,tail

attL 3427395:3427411|attR 3437033:3437049

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003860711.1\|3394473_3395154_-	ribonuclease III	A0A2P0VNZ5	Tetraselmis_virus	9.6e-21	39.0
WP_032649119.1\|3395377_3396352_-	signal peptidase I	NA	NA	NA	NA
WP_003860714.1\|3396367_3398173_-	elongation factor 4	E4ZFJ7	Streptococcus_phage	1.1e-23	25.9
WP_151548453.1\|3398355_3398679_-	hypothetical protein	K7PGV5	Enterobacterial_phage	6.8e-25	54.2
WP_045347937.1\|3398678_3398918_-	hypothetical protein	K7P7N3	Enterobacteria_phage	7.0e-27	72.2
WP_063863880.1\|3398992_3399574_-	recombinase family protein	A0A1S6L009	Salmonella_phage	2.8e-77	79.2
WP_151548454.1\|3399731_3400376_+	hypothetical protein	G9JXH9	Shigella_phage	2.2e-27	50.3
WP_022651625.1\|3401236_3401524_-	hypothetical protein	I6PD79	Cronobacter_phage	9.3e-18	61.5
WP_063945428.1\|3401541_3401880_-	hypothetical protein	G8C7Q5	Escherichia_phage	3.2e-57	99.1
WP_151548455.1\|3401945_3402878_-\|tail	phage tail protein	G8C7Q3	Escherichia_phage	2.2e-164	98.1
WP_151548456.1\|3402924_3403371_-	hypothetical protein	G8C7Q2	Escherichia_phage	1.5e-70	89.9
WP_047642180.1\|3403360_3403960_-	hypothetical protein	G8C7Q1	Escherichia_phage	1.5e-97	87.4
WP_151884558.1\|3403962_3404316_-	hypothetical protein	G8C7Q0	Escherichia_phage	1.1e-52	90.5
WP_151884559.1\|3404317_3404800_-	hypothetical protein	G8C7P9	Escherichia_phage	3.3e-84	96.2
WP_151884560.1\|3404802_3405108_-	hypothetical protein	G8C7P8	Escherichia_phage	1.2e-10	83.8
WP_032621539.1\|3405147_3406284_-\|coat	coat protein	G8C7P7	Escherichia_phage	8.4e-195	92.6
WP_063945437.1\|3406728_3408132_-	DUF4055 domain-containing protein	G8C7P4	Escherichia_phage	2.9e-253	94.8
WP_151884561.1\|3408136_3409441_-\|terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	2.2e-146	59.6
WP_151548457.1\|3409418_3410405_-\|terminase	terminase small subunit	I6X6R5	Burkholderia_virus	2.6e-35	41.7
WP_072139842.1\|3410439_3410688_-	hypothetical protein	NA	NA	NA	NA
WP_151548500.1\|3410800_3411250_-	hypothetical protein	G8C7T5	Escherichia_phage	1.2e-56	71.1
WP_151548458.1\|3411249_3411432_-	hypothetical protein	K7PM01	Enterobacterial_phage	4.2e-16	86.4
WP_151548501.1\|3411388_3411664_-	hypothetical protein	G8C7W1	Escherichia_phage	9.2e-31	80.9
WP_151548459.1\|3411665_3412295_-	glycoside hydrolase family 19 protein	G8C7W0	Escherichia_phage	7.1e-103	88.5
WP_047642188.1\|3412291_3412576_-\|holin	phage holin family protein	K7PKN9	Enterobacterial_phage	2.6e-20	48.4
WP_151548460.1\|3412562_3412949_-	hypothetical protein	A0A192Y8P2	Salmonella_phage	1.0e-43	78.9
WP_151548461.1\|3413369_3413753_-	hypothetical protein	NA	NA	NA	NA
WP_151548462.1\|3414320_3415136_-	antitermination protein	K7P7B9	Enterobacteria_phage	1.1e-127	84.5
WP_151548463.1\|3415132_3415273_-	YlcG family protein	A0A0M5M7B2	Salmonella_phage	1.8e-06	73.7
WP_151548464.1\|3415269_3415881_-	recombination protein NinG	A0A0M4RU10	Salmonella_phage	3.8e-61	73.4
WP_151548465.1\|3415883_3416084_-	hypothetical protein	H6WRY8	Salmonella_phage	2.1e-24	76.9
WP_151548466.1\|3416089_3416689_-	DUF1367 family protein	A0A0M4QX23	Salmonella_phage	5.9e-99	87.3
WP_017693510.1\|3416773_3416983_-	hypothetical protein	NA	NA	NA	NA
WP_058646353.1\|3417093_3417327_-	DinI family protein	A0A0M4REN2	Salmonella_phage	6.8e-27	79.2
WP_151548467.1\|3417470_3419450_-	DNA cytosine methyltransferase	H9C171	Pectobacterium_phage	1.3e-203	53.6
WP_047642195.1\|3419446_3419704_-	hypothetical protein	NA	NA	NA	NA
WP_151548468.1\|3419703_3420312_-	hypothetical protein	M9NZE4	Enterobacteria_phage	8.6e-21	49.3
WP_047642158.1\|3420315_3420597_-	hypothetical protein	A0A077KAZ4	Edwardsiella_phage	7.2e-31	80.5
WP_151548469.1\|3420599_3421088_-	hypothetical protein	NA	NA	NA	NA
WP_045629615.1\|3421084_3421345_-	DUF977 family protein	H6WRX9	Salmonella_phage	1.3e-29	74.7
WP_151548470.1\|3421348_3422035_-	hypothetical protein	NA	NA	NA	NA
WP_151548471.1\|3422046_3422739_-	phage replication protein	G8C7U6	Escherichia_phage	7.1e-80	60.4
WP_151548502.1\|3422722_3423715_-	replication protein	A5VW95	Enterobacteria_phage	1.4e-49	75.0
WP_032659815.1\|3423888_3424143_-	hypothetical protein	NA	NA	NA	NA
WP_151548472.1\|3424151_3424694_-	regulator	M9NZI6	Enterobacteria_phage	2.1e-47	54.4
WP_047736767.1\|3424696_3424927_-	helix-turn-helix domain-containing protein	H6WRX5	Salmonella_phage	4.0e-11	40.8
WP_052951377.1\|3425029_3425452_+	transcriptional regulator	A0A0H5BBV1	Pseudomonas_phage	7.1e-06	51.2
WP_032619247.1\|3425634_3425820_+	hypothetical protein	NA	NA	NA	NA
WP_151548473.1\|3426241_3429517_+	exodeoxyribonuclease	K7P6V4	Enterobacteria_phage	0.0e+00	68.4
3427395:3427411	attL	NA	NA	NA	NA
WP_151548503.1\|3429528_3430638_+	enterohemolysin	H6WRX0	Salmonella_phage	1.5e-167	80.2
WP_151548474.1\|3430672_3431338_+	morphogenetic protein	Q71T76	Escherichia_phage	3.9e-51	50.4
WP_032674007.1\|3431324_3431567_+	DUF4060 family protein	K7PHF4	Enterobacteria_phage	5.1e-33	89.9
WP_023314677.1\|3431613_3431898_+	excisionase Xis	H6WRW8	Salmonella_phage	9.5e-39	81.9
WP_006811608.1\|3431875_3433105_-\|integrase	site-specific integrase	H6WRW7	Salmonella_phage	9.9e-242	98.8
WP_006811609.1\|3433536_3434013_-	SoxR-reducing system protein RseC	NA	NA	NA	NA
WP_023304255.1\|3434009_3434963_-	sigma-E factor regulatory protein RseB	NA	NA	NA	NA
WP_015572138.1\|3434962_3435613_-	anti-sigma-E factor RseA	NA	NA	NA	NA
WP_006176728.1\|3435644_3436220_-	RNA polymerase sigma factor RpoE	A0A0F6TH34	Sinorhizobium_phage	8.2e-05	28.1
3437033:3437049	attR	NA	NA	NA	NA

DBSCAN-SWA_6

3997448 : 4025912

uncultured_Caudovirales_phage(54.17%)

terminase,head,portal,protease,plate,transposase,capsid,tRNA,integrase,tail

attL 3995310:3995324|attR 4031033:4031047

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3995310:3995324	attL	NA	NA	NA	NA
WP_015571911.1\|3997448_3998462_-\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	1.4e-108	58.9
WP_001144069.1\|3998698_3998914_+	30S ribosomal protein S21	NA	NA	NA	NA
WP_039269725.1\|3999029_4000775_+	DNA primase	A0A0K1LMQ9	Caulobacter_phage	1.4e-76	39.0
WP_015571912.1\|4000927_4002772_+	RNA polymerase sigma factor RpoD	A0A2I7SAT0	Vibrio_phage	8.4e-35	33.7
WP_017384024.1\|4002874_4003381_-	G/U mismatch-specific DNA glycosylase	NA	NA	NA	NA
WP_126851081.1\|4004004_4004340_-	hypothetical protein	NA	NA	NA	NA
WP_151548505.1\|4004390_4004729_-	hypothetical protein	NA	NA	NA	NA
WP_023304451.1\|4004737_4005352_-\|tail	tail assembly protein	K7PM97	Enterobacterial_phage	2.1e-67	69.7
WP_151548482.1\|4005365_4007027_-\|terminase	terminase large subunit	A0A2H4JB64	uncultured_Caudovirales_phage	0.0e+00	97.8
WP_000113647.1\|4007010_4007367_-\|terminase	phage terminase small subunit P27 family	A0A2H4JHS3	uncultured_Caudovirales_phage	5.5e-60	99.2
WP_151548483.1\|4007324_4007516_-\|terminase	terminase	NA	NA	NA	NA
WP_151548484.1\|4007642_4008086_-	HNH endonuclease	A0A2H4JAS8	uncultured_Caudovirales_phage	8.0e-77	90.5
WP_001549740.1\|4008085_4008379_-\|head,tail	phage gp6-like head-tail connector protein	A0A2H4JD08	uncultured_Caudovirales_phage	9.4e-42	81.4
WP_001549741.1\|4008371_4008710_-\|head	phage head closure protein	A0A2H4JHK5	uncultured_Caudovirales_phage	1.5e-22	47.7
WP_151548485.1\|4008706_4009942_-\|portal	phage portal protein	A0A2H4JFJ9	uncultured_Caudovirales_phage	2.5e-237	97.6
WP_108168750.1\|4009943_4010504_-\|head,protease	HK97 family phage prohead protease	A0A2H4JB68	uncultured_Caudovirales_phage	1.0e-100	98.4
WP_108168751.1\|4010555_4011722_-\|capsid	phage major capsid protein	A0A2H4JED2	uncultured_Caudovirales_phage	2.6e-215	99.0
WP_108168752.1\|4011965_4012739_+	hypothetical protein	NA	NA	NA	NA
WP_108168788.1\|4012781_4013018_-	hypothetical protein	NA	NA	NA	NA
WP_108168753.1\|4013385_4014750_-	AAA family ATPase	A0A2H4JFA4	uncultured_Caudovirales_phage	2.7e-256	96.0
WP_045324750.1\|4014746_4015115_-	hypothetical protein	A0A2H4JCX7	uncultured_Caudovirales_phage	1.3e-61	99.2
WP_029401191.1\|4015111_4015339_-	hypothetical protein	A0A2H4JBA1	uncultured_Caudovirales_phage	5.4e-29	89.2
WP_078309651.1\|4015331_4015517_-	hypothetical protein	A0A2H4JFH8	uncultured_Caudovirales_phage	8.3e-20	85.2
WP_151548486.1\|4015509_4016532_-	host cell division inhibitor Icd-like protein	A0A2H4JGN8	uncultured_Caudovirales_phage	4.6e-43	39.0
WP_045341105.1\|4016542_4016752_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_151548487.1\|4016893_4017727_-	hypothetical protein	NA	NA	NA	NA
WP_047723480.1\|4017719_4019144_-\|integrase	integrase family protein	H7BV31	unidentified_phage	8.8e-08	27.2
WP_108376613.1\|4019578_4019938_-\|plate	baseplate J-like protein	A0A0F7LCQ9	Escherichia_phage	4.3e-44	78.0
WP_039269723.1\|4019943_4020294_-\|plate	baseplate assembly protein	A0A0M4RE59	Salmonella_phage	4.4e-38	70.7
WP_039269721.1\|4020995_4021766_-	hypothetical protein	NA	NA	NA	NA
WP_039269719.1\|4021914_4022364_-	phage virion morphogenesis protein	O80313	Escherichia_phage	1.4e-47	66.0
WP_151884562.1\|4022356_4022824_-\|tail	phage tail protein	A0A218M4K6	Erwinia_phage	8.8e-58	67.7
WP_017382984.1\|4022786_4022945_-	hypothetical protein	A0A218M4L1	Erwinia_phage	1.5e-14	75.0
WP_017692646.1\|4023515_4023980_-	hypothetical protein	NA	NA	NA	NA
WP_017692645.1\|4023957_4024350_-	type IV secretion protein Rhs	NA	NA	NA	NA
WP_088581786.1\|4024764_4025912_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	5.0e-147	92.6
4031033:4031047	attR	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

3. NZ_CP042542

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

2110 : 36530

Escherichia_phage(37.5%)

transposase,protease,integrase

attL 1913:1972|attR 22534:23488

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1913:1972	attL	NA	NA	NA	NA
WP_001067834.1\|2110_2815_+\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	3.1e-139	99.6
WP_014344500.1\|2848_3121_-	hypothetical protein	NA	NA	NA	NA
WP_000845039.1\|3089_4103_-\|integrase	class 1 integron integrase IntI1	A0A1P8DJJ6	Virus_Rctr41k	1.0e-71	45.5
WP_015060105.1\|4255_4996_+	subclass B1 metallo-beta-lactamase IMP-4	NA	NA	NA	NA
WP_015063357.1\|5227_5560_+	quaternary ammonium compound efflux SMR transporter QacG2	NA	NA	NA	NA
WP_003159191.1\|5686_6241_+	aminoglycoside N-acetyltransferase AAC(6')-Ib4	NA	NA	NA	NA
WP_000186237.1\|6335_6968_+	type B-3 chloramphenicol O-acetyltransferase CatB3	A0A2R8FE91	Brazilian_cedratvirus	4.1e-26	41.2
WP_000679427.1\|7124_7472_+	quaternary ammonium compound efflux SMR transporter QacE delta 1	NA	NA	NA	NA
WP_000259031.1\|7465_8305_+	sulfonamide-resistant dihydropteroate synthase Sul1	A0A0B5J4J5	Pandoravirus	5.0e-11	27.2
WP_000050481.1\|8709_10251_+\|transposase	IS91 family transposase	NA	NA	NA	NA
WP_003833285.1\|11557_12010_+	SgcJ/EcaC family oxidoreductase	NA	NA	NA	NA
WP_012695489.1\|12051_12696_-	quinolone resistance pentapeptide repeat protein QnrB2	NA	NA	NA	NA
WP_000259031.1\|13186_14026_+	sulfonamide-resistant dihydropteroate synthase Sul1	A0A0B5J4J5	Pandoravirus	5.0e-11	27.2
WP_001993321.1\|13955_14135_-	hypothetical protein	NA	NA	NA	NA
WP_004883563.1\|14153_14426_+	hypothetical protein	NA	NA	NA	NA
WP_000427614.1\|14607_15612_-\|transposase	IS110-like element IS5075 family transposase	NA	NA	NA	NA
WP_000184001.1\|15839_17045_+	chromate efflux transporter	NA	NA	NA	NA
WP_000130000.1\|17055_17361_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_024143553.1\|17376_17559_-	hypothetical protein	NA	NA	NA	NA
WP_001389365.1\|17587_18352_+\|transposase	IS6-like element IS6100 family transposase	A0A077SL39	Escherichia_phage	4.3e-86	65.7
WP_001336397.1\|18542_18899_-	hypothetical protein	NA	NA	NA	NA
WP_001137892.1\|18844_19429_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_000004159.1\|19428_20667_-	MFS transporter	NA	NA	NA	NA
WP_000219391.1\|20663_21569_-	Mph(A) family macrolide 2'-phosphotransferase	NA	NA	NA	NA
WP_001067834.1\|21690_22395_-\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	3.1e-139	99.6
WP_000557454.1\|22627_23488_+	aminoglycoside N-acetyltransferase AAC(3)-IId	NA	NA	NA	NA
22534:23488	attR	NA	NA	NA	NA
WP_000587837.1\|23500_24043_+	AAA family ATPase	NA	NA	NA	NA
WP_000951934.1\|24524_24716_-	hypothetical protein	NA	NA	NA	NA
WP_001330846.1\|24721_24967_+	hypothetical protein	NA	NA	NA	NA
WP_000080861.1\|25017_26154_+	DUF3883 domain-containing protein	NA	NA	NA	NA
WP_000971921.1\|26268_27639_+\|transposase	IS1182-like element ISCfr1 family transposase	NA	NA	NA	NA
WP_000027057.1\|28459_29320_+	class A broad-spectrum beta-lactamase TEM-1	Q1MVP3	Enterobacteria_phage	4.6e-161	100.0
WP_011091091.1\|29988_30498_-	transcriptional regulator	NA	NA	NA	NA
WP_011091092.1\|30545_32633_-	hypothetical protein	NA	NA	NA	NA
WP_012579091.1\|32645_33596_-	DsbC family protein	NA	NA	NA	NA
WP_045626305.1\|33606_34869_-	hypothetical protein	NA	NA	NA	NA
WP_077256341.1\|34913_35189_-	lytic transglycosylase domain-containing protein	NA	NA	NA	NA
WP_045626302.1\|35413_35797_-	DUF1496 domain-containing protein	NA	NA	NA	NA
WP_011091025.1\|35876_36530_+\|protease	CPBP family intramembrane metalloprotease	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_CP042541

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP042540

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

3. NZ_CP042542

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