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_CP013689	Streptococcus infantarius strain ICDDRB-NRC-S5 chromosome, complete genome	2 crisprs	cas3,csa3,csm6,RT,csn2,cas2,cas1,cas9,DinG,DEDDh	1	16	5	1

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP013689_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP013689_1

1142204-1143365

TypeII

Consensus_repeat	Method
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CRISPRCasFinder
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CRT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	PILER-CR
TAAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCT	PILER-CR

17 spacers

csn2,cas2,cas1,cas9

The CRISPR arrays of NZ_CP013689_1

>merge|NZ_CP013689|1|1142204-1143365|CRISPRCasFinder,CRT,PILER-CR,PILER-CR
GGGTTTTGGTGTTGTAAATCTTGAGAGTACAAAAACACAAAATAAGGGCAAAAGCCAAAGAATCTGCGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACGCGCTAGTTGTTCGAATAAATGTGTTACCGGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCCTTTCCCAGAAATTAATTCGCTGATTAAAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTTTTCTGCCCCACCTGAAACTTTAGTAGCTTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACACATATCCTCGCCTGATTGTTGTTTCCAGTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTTTTCTGCCCCACCTGAAACTTTAGTAGCTTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACGGTTATAACAGCCATAAAAAAGGACTAGCTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCACTCACTACCTCGCTAAATTTATTCTTTAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTATTTCAATGAAATAATGTGGCACTTCAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTATACATTCGAACTTGTCGCTCACTTGTAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTCTCTTCAAAATTTGTTTAGCAATAAGGTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTGTATGGATTAGATTCGTCACTTGGTGAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTTCAAATGTTTCTGCTGAAAGATTGATAGGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCAAGTTCGTTAACAAAGTCAACAATTGATTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGATTAAACGCATAGAATTTTGTTATATTTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCATTCAATGTTTCAGCTTCTAGCTTCTTAAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTCTTCAGTAGTCAAACGATCTTTACCACCAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCT

>NZ_CP013689|1|1|1142204-1143363|CRISPRCasFinder
GGGTTTTGGTGTTGTAAATCTTGAGAGTACAAAAAC	ACAAAATAAGGGCAAAAGCCAAAGAATCTGC
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GCGCTAGTTGTTCGAATAAATGTGTTACCG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CCTTTCCCAGAAATTAATTCGCTGATTAAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	ACATATCCTCGCCTGATTGTTGTTTCCAGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GGTTATAACAGCCATAAAAAAGGACTAGCT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CACTCACTACCTCGCTAAATTTATTCTTTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTATTTCAATGAAATAATGTGGCACTTCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TATACATTCGAACTTGTCGCTCACTTGTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTCTCTTCAAAATTTGTTTAGCAATAAGGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTGTATGGATTAGATTCGTCACTTGGTGA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTCAAATGTTTCTGCTGAAAGATTGATAG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CAAGTTCGTTAACAAAGTCAACAATTGATT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGATTAAACGCATAGAATTTTGTTATATTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CATTCAATGTTTCAGCTTCTAGCTTCTTAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TCTTCAGTAGTCAAACGATCTTTACCACCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC

>NZ_CP013689|1|1|1142204-1143363|CRT
GGGTTTTGGTGTTGTAAATCTTGAGAGTACAAAAAC	ACAAAATAAGGGCAAAAGCCAAAGAATCTGC
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GCGCTAGTTGTTCGAATAAATGTGTTACCG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CCTTTCCCAGAAATTAATTCGCTGATTAAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	ACATATCCTCGCCTGATTGTTGTTTCCAGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GGTTATAACAGCCATAAAAAAGGACTAGCT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CACTCACTACCTCGCTAAATTTATTCTTTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTATTTCAATGAAATAATGTGGCACTTCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TATACATTCGAACTTGTCGCTCACTTGTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTCTCTTCAAAATTTGTTTAGCAATAAGGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTGTATGGATTAGATTCGTCACTTGGTGA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTCAAATGTTTCTGCTGAAAGATTGATAG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CAAGTTCGTTAACAAAGTCAACAATTGATT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGATTAAACGCATAGAATTTTGTTATATTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CATTCAATGTTTCAGCTTCTAGCTTCTTAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TCTTCAGTAGTCAAACGATCTTTACCACCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC

>NZ_CP013689|1|1|1142271-1142901|PILER-CR
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GCGCTAGTTGTTCGAATAAATGTGTTACCG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CCTTTCCCAGAAATTAATTCGCTGATTAAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	ACATATCCTCGCCTGATTGTTGTTTCCAGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GGTTATAACAGCCATAAAAAAGGACTAGCT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CACTCACTACCTCGCTAAATTTATTCTTTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTATTTCAATGAAATAATGTGGCACTTCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TATACATTCGAACTTGTCGCTCACTTGTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTCTCTTCAAAATTTGTTTAGCAATAAGGTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTGTATGGATTAGATTCGTCACTTGGTGAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTTCAAATGTTTCTGCTGAAAGATTGATAGGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCAAGTTCGTTAACAAAGTCAACAATTGATTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGATTAAACGCATAGAATTTTGTTATATTTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCATTCAATGT	TTCAGCTTCTAGCTTCT
TAAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTCTTCAGTAG	TCAAACGATCTTTACCACCAGTTTTA


>NZ_CP013689|1|2|1143193-1143365|PILER-CR
	GCGCTAGTTGTTCGAATAAATGTGTTACCG
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CCTTTCCCAGAAATTAATTCGCTGATTAAA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	ACATATCCTCGCCTGATTGTTGTTTCCAGT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TTTTCTGCCCCACCTGAAACTTTAGTAGCTT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	GGTTATAACAGCCATAAAAAAGGACTAGCT
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	CACTCACTACCTCGCTAAATTTATTCTTTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TGTATTTCAATGAAATAATGTGGCACTTCA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAAC	TATACATTCGAACTTGTCGCTCACTTGTA
GTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTCTCTTCAAAATTTGTTTAGCAATAAGGTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGTGTATGGATTAGATTCGTCACTTGGTGAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTTCAAATGTTTCTGCTGAAAGATTGATAGGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCAAGTTCGTTAACAAAGTCAACAATTGATTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTGATTAAACGCATAGAATTTTGTTATATTTGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACCATTCAATGT	TTCAGCTTCTAGCTTCT
TAAGTTTTACGGTTACTTAAATCTTGAGAGTACAAAAACTCTTCAGTAG	TCAAACGATCTTTACCACCAGTTTTA
CGGTTACTTAAATCTTGAGAGTACAAAAACCT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP013689.1\|WP_148638783.1\|1149907_1150072_-\|type-II-toxin-antitoxin-system-HicB-family-antitoxin	unknown	unknown	gnl\|CDD\|224514
NZ_CP013689.1\|WP_006532624.1\|1144471_1144795_-\|CRISPR-associated-endonuclease-Cas2	cas2	COG3512_cas2_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226043
NZ_CP013689.1\|WP_058814072.1\|1133046_1133796_-\|Crp/Fnr-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|223736
NZ_CP013689.1\|WP_058814081.1\|1151747_1152371_-\|NUDIX-hydrolase	unknown	unknown	gnl\|CDD\|240029
NZ_CP013689.1\|WP_020917044.1\|1132580_1132883_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274701
NZ_CP013689.1\|WP_058814080.1\|1150260_1150920_-\|TIGR01906-family-membrane-protein	unknown	unknown	gnl\|CDD\|226884
NZ_CP013689.1\|WP_058814073.1\|1135903_1137337_-\|LCP-family-protein	unknown	unknown	gnl\|CDD\|224235
NZ_CP013689.1\|WP_058814071.1\|1130681_1132529_-\|heavy-metal-translocating-P-type-ATPase	unknown	unknown	gnl\|CDD\|319774
NZ_CP013689.1\|WP_020917047.1\|1134433_1135795_-\|23S-rRNA-(uracil(1939)-C(5))-methyltransferase-RlmD	unknown	unknown	gnl\|CDD\|225174
NZ_CP013689.1\|WP_043895267.1\|1134034_1134247_-\|type-II-toxin-antitoxin-system-Phd/YefM-family-antitoxin	unknown	unknown	gnl\|CDD\|197256
NZ_CP013689.1\|WP_020917050.1\|1138257_1138734_-\|shikimate-kinase	unknown	unknown	gnl\|CDD\|234654
NZ_CP013689.1\|WP_043878432.1\|1144796_1145708_-\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|274694
NZ_CP013689.1\|WP_020917067.1\|1150909_1151683_-\|TIGR01457-family-HAD-type-hydrolase	unknown	unknown	gnl\|CDD\|319832
NZ_CP013689.1\|WP_058814078.1\|1145879_1149269_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	cas9	cd09643_cas9_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|273840
NZ_CP013689.1\|WP_082661531.1\|1150093_1150264_-\|NADH-quinone-oxidoreductase-subunit-L	unknown	unknown	unknown
NZ_CP013689.1\|WP_058814079.1\|1149373_1149790_-\|nucleoside-diphosphate-kinase	unknown	unknown	gnl\|CDD\|179085
NZ_CP013689.1\|WP_058814076.1\|1140143_1141979_-\|elongation-factor-4	unknown	unknown	gnl\|CDD\|235462
NZ_CP013689.1\|WP_058814074.1\|1137436_1138261_-\|prephenate-dehydratase	unknown	unknown	gnl\|CDD\|237013
NZ_CP013689.1\|WP_058814077.1\|1143425_1144475_-\|CRISPR-associated-protein-Cas7	csn2	cd12217_csn2_CAS-II-A	gnl\|CDD\|213410
NZ_CP013689.1\|WP_058814075.1\|1138726_1140010_-\|3-phosphoshikimate-1-carboxyvinyltransferase	unknown	unknown	gnl\|CDD\|235037

Protein	Function_ID	Function_description	E-value
NZ_CP013689.1\|WP_148638783.1\|1149907_1150072_-\|type-II-toxin-antitoxin-system-HicB-family-antitoxin	gnl\|CDD\|224514	COG1598, COG1598, Predicted nuclease of the RNAse H fold, HicB family [General function prediction only].	8.77878e-05
NZ_CP013689.1\|WP_006532624.1\|1144471_1144795_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|226043	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms].	1.29645e-29
NZ_CP013689.1\|WP_058814072.1\|1133046_1133796_-\|Crp/Fnr-family-transcriptional-regulator	gnl\|CDD\|223736	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms].	5.64017e-50
NZ_CP013689.1\|WP_058814081.1\|1151747_1152371_-\|NUDIX-hydrolase	gnl\|CDD\|240029	cd04672, Nudix_Hydrolase_14, Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate specificity are determined by the N-terminal extension or by residues in variable loop regions. Mechanistically, substrate hydrolysis occurs by a nucleophilic substitution reaction, with variation in the numbers and roles of divalent cations required.	1.11241e-54
NZ_CP013689.1\|WP_020917044.1\|1132580_1132883_-\|hypothetical-protein	gnl\|CDD\|274701	TIGR03652, FeS_repair_RIC, iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	5.47446e-15
NZ_CP013689.1\|WP_058814080.1\|1150260_1150920_-\|TIGR01906-family-membrane-protein	gnl\|CDD\|226884	COG4478, COG4478, Predicted membrane protein [Function unknown].	2.17376e-61
NZ_CP013689.1\|WP_058814073.1\|1135903_1137337_-\|LCP-family-protein	gnl\|CDD\|224235	COG1316, LytR, Transcriptional regulator [Transcription].	2.00147e-51
NZ_CP013689.1\|WP_058814071.1\|1130681_1132529_-\|heavy-metal-translocating-P-type-ATPase	gnl\|CDD\|319774	cd02079, P-type_ATPase_HM, P-type heavy metal-transporting ATPase. Heavy metal-transporting ATPases (Type IB ATPases) transport heavy metal ions (Cu(+), Cu(2+), Zn(2+), Cd(2+), Co(2+), etc.) across biological membranes. These ATPases include mammalian copper-transporting ATPases, ATP7A and ATP7B, Bacillus subtilis CadA which transports cadmium, zinc and cobalt out of the cell, Bacillus subtilis ZosA/PfeT which transports copper, and perhaps also zinc and ferrous iron, Archaeoglobus fulgidus CopA and CopB, Staphylococcus aureus plasmid pI258 CadA, a cadmium-efflux ATPase, and Escherichia coli ZntA which is selective for Pb(2+), Zn(2+), and Cd(2+). The characteristic N-terminal heavy metal associated (HMA) domain of this group is essential for the binding of metal ions. This family belongs to the P-type ATPases, a large family of integral membrane transporters that are of critical importance in all kingdoms of life. They generate and maintain (electro-) chemical gradients across cellular membranes, by translocating cations, heavy metals and lipids, and are distinguished from other main classes of transport ATPases (F- , V- , and ABC- type) by the formation of a phosphorylated (P-) intermediate state in the catalytic cycle.	0
NZ_CP013689.1\|WP_020917047.1\|1134433_1135795_-\|23S-rRNA-(uracil(1939)-C(5))-methyltransferase-RlmD	gnl\|CDD\|225174	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis].	0
NZ_CP013689.1\|WP_043895267.1\|1134034_1134247_-\|type-II-toxin-antitoxin-system-Phd/YefM-family-antitoxin	gnl\|CDD\|197256	cd09159, PLDc_ybhO_like_2, Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins. Catalytic domain, repeat 2, of Escherichia coli cardiolipin (CL) synthase ybhO and similar proteins. In Escherichia coli, there are two genes, f413 (ybhO) and o493 (ymdC), which are homologous to gene cls that encodes the Escherichia coli CL synthase. The prototype of this subfamily is Escherichia coli CL synthase ybhO specified by the f413 (ybhO) gene. ybhO is a membrane-bound protein that catalyzes the formation of cardiolipin (CL) by transferring phosphatidyl group between two phosphatidylglycerol molecules. It can also catalyze phosphatidyl group transfer to water to form phosphatidate. In contrast to the Escherichia coli CL synthase encoded by the cls gene (EcCLS), ybhO does not hydrolyze CL. Moreover, ybhO lacks an N-terminal segment encoded by Escherichia coli cls, which makes ybhO easy to denature. The monomer of ybhO consists of two catalytic domains. Each catalytic domain contains one copy of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue) that characterizes the phospholipase D (PLD) superfamily. Two HKD motifs from two domains form a single active site involved in phosphatidyl group transfer. ybhO can be stimulated by phosphate and inhibited by CL, the product of the reaction, and by phosphatidate. Phosphate stimulation may be unique to enzymes with CL synthase activity belonging to the PLD superfamily.	0.000812449
NZ_CP013689.1\|WP_020917050.1\|1138257_1138734_-\|shikimate-kinase	gnl\|CDD\|234654	PRK00131, aroK, shikimate kinase; Reviewed.	1.87814e-60
NZ_CP013689.1\|WP_043878432.1\|1144796_1145708_-\|type-II-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274694	TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype II/NMENI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 variant of the NMENI subtype of CRISPR/Cas system.	3.31557e-125
NZ_CP013689.1\|WP_020917067.1\|1150909_1151683_-\|TIGR01457-family-HAD-type-hydrolase	gnl\|CDD\|319832	cd07530, HAD_Pase_UmpH-like, UmpH/NagD family phosphatase, similar to Escherichia coli UmpH UMP phosphatase/NagD nucleotide phosphatase and Mycobacterium tuberculosis Rv1692 glycerol 3-phosphate phosphatase. Escherichia coli UmpH/NagD is a ribonucleoside tri-, di-, and monophosphatase with a preference for purines, it shows peak activity with UMP and functions in UMP-degradation. It is also an effective phosphatase with AMP, GMP and CMP. Mycobacterium tuberculosis phosphatase, Rv1692 is a glycerol 3-phosphate phosphatase. Rv1692 is the final enzyme involved in glycerophospholipid recycling/catabolism. This subfamily belongs to the UmpH/NagD phosphatase family, and to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	9.46684e-130
NZ_CP013689.1\|WP_058814078.1\|1145879_1149269_-\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	gnl\|CDD\|273840	TIGR01865, conserved_hypothetical_protein, CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.	0
NZ_CP013689.1\|WP_058814079.1\|1149373_1149790_-\|nucleoside-diphosphate-kinase	gnl\|CDD\|179085	PRK00668, ndk, mulitfunctional nucleoside diphosphate kinase/apyrimidinic endonuclease/3'-; Validated.	3.66949e-80
NZ_CP013689.1\|WP_058814076.1\|1140143_1141979_-\|elongation-factor-4	gnl\|CDD\|235462	PRK05433, PRK05433, GTP-binding protein LepA; Provisional.	0
NZ_CP013689.1\|WP_058814074.1\|1137436_1138261_-\|prephenate-dehydratase	gnl\|CDD\|237013	PRK11898, PRK11898, prephenate dehydratase; Provisional.	5.68305e-147
NZ_CP013689.1\|WP_058814077.1\|1143425_1144475_-\|CRISPR-associated-protein-Cas7	gnl\|CDD\|213410	cd12217, Stu0660_Csn2, Stu0660-like CRISPR/Cas system-associated protein Csn2. Csn2 is a Nmeni subtype-specific Cas protein, which may function in the adaptation process which mediates the incorporation of foreign nucleic acids into the microbial host genome. Csn 2 may interact directly with double-stranded DNA. This family of Csn2 proteins includes Stu0660, the proteins are larger than other (canonical) Csn2 proteins as they have an additional alpha-helical C-terminal domain. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Csn2 has been predicted to be a functional analog of Cas4 based on anti-correlated phyletic patterns; also known as SPy1049 family.	1.13844e-139
NZ_CP013689.1\|WP_058814075.1\|1138726_1140010_-\|3-phosphoshikimate-1-carboxyvinyltransferase	gnl\|CDD\|235037	PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional.	0

>NZ_CP013689.1|WP_058814076.1|1140143_1141979_-|elongation-factor-4
MDIQELKKRQEKIRNFSIIAHIDHGKSTLADRILEKTETVSSREMQAQLLDSMDLERERGITIKLNAIELNYTAKDGETYIFHLIDTPGHVDFSYEVSRSLAACEGAILVVDAAQGIEAQTLANVYLALDNDLEILPVINKIDLPAADPERVRQEIEDVIGLDASEAVLASAKAGIGIEEILEQIVEYVPAPAGDIEAPLQALIFDSVYDAYRGVILQVRIVNGMVKPGDTIQLMSNGKTFDVTEVGIFTPKAVGRDFLATGDVGYIAASIKTVADTRVGDTVTLADNPAEAPLHGYKQMNPMVFAGLYPIESNKYNDLREALEKLQLNDASLQFEPETSQALGFGFRCGFLGLLHMDVIQERLEREFNIDLIMTAPSVVYHVNTTDGDMLEVSNPSEFPDPTKVASIEEPYVKAQIMVPQEFVGAVMELAQRKRGDFVTMDYIDENRVNVIYQIPLAEIVFDFFDKLKSSTRGYASFDYEISEYRKSKLVKMDILLNGDKVDALSFIVHNEFAYERGKLIVEKLKKIIPRQQFEVPIQAAIGQKIVARSDIKALRKNVLAKCYGGDVSRKRKLLEKQKAGKKRMKAIGSVEVPQEAFLSVLSMDDESSKK
>NZ_CP013689.1|WP_058814075.1|1138726_1140010_-|3-phosphoshikimate-1-carboxyvinyltransferase
MKLLTNVSQLQGTLRVPGDKSISHRSIMFGSLAKGKTTVRDILRGEDVLSTMQVFRDLGVDIQDDGELVTITGVGFDGLKAPQNKLDMGNSGTSIRLISGVLAGQDFTVEMFGDDSLSKRPMDRVTIPLRQMGVEVSGQTERDLPPLTMHGSKSLKPIHYQLPVASAQVKSALIFAALQADGESVIIEKEKTRNHTEDMIVQFGGEINVNVKEIRIKGGQEFTGQDVVVPGDISSAAFWLVAGLIVPNANVVLENVGINETRTGILDVIEAMGGKMTISDVDDIAKSATITVETSELHGTEIGGEIIPRLIDELPIIALLATQASGTTVIRDAEELKVKETDRIQVVVDALNAMGADITPTDDGMIIKGKTPLHGAKINTFGDHRIGMMASIAALLVSEGDVELERAEAINTSYPSFFSDLEVLSHG
>NZ_CP013689.1|WP_020917050.1|1138257_1138734_-|shikimate-kinase
MARIIIGFMGSGKSTISSLLDKDYIDMDALITERIGMSIADFFEKEGEAKFREIESQVLAELVDSDHVISTGGGVVINPINREILAKNPETIYLKADFEILYDRIKNDSQNVRPLFVNNSKEAFKAIFDGRRDMYESAATRIIEVTGKTPEEIVEEIG
>NZ_CP013689.1|WP_058814074.1|1137436_1138261_-|prephenate-dehydratase
MKVGYLGPNGSFTHNVAVKAFPSADRVSFGNITEVIKSYEEGVVDYAIIPVENSIEGSVHETLDYLFHQAQIEAVAEMIQPIKQQLLATSQDKVIEKIFSHPQAIAQGKKYTKSHYPNAQIEMTASTAYAARFIAENPDKPFAAIAPVAAAKEYGLEIIAKDIQEMDENYTRFWVLGRKKYAFELTKCQQKVSLTLTLPDNLPGALYKALSVFAWRGINLTKIESRPLKTALGEYFFIVDVDNTNEALVSFALEELHLLGIDYKMLGNYDVYKL
>NZ_CP013689.1|WP_058814073.1|1135903_1137337_-|LCP-family-protein
MAQDKLSRHEELRYEYLLRNLEYLNPQQKEEFGYLYHKKQMIMREMSSGYPSSANKEPNYERYDDYGDYYEYYDYYDDDYDDDYDNQVTSQGLPKYPQAKKSRSSKRKKKSKKQTSYLDYYEGIAHEEPKATKAKKPKKKNHKKRFKHFLQFCGFLVVIVMIGMVYMFYHGVHEVSSGETNYSAAVVEPFNGQDSRDGTNILILGSDKRISQGSSDARTDTIMVMNIGNKEGKVKLVSFMRDTLVNINGVSYNDYANDQKLNVAFNIGEQDDRQGAELMRKTLKDNFDINVKYYVMVDFETFAEAINTLFPKGVKIDAKFGTVDGQEVSSVEVPDDLNIQADGSVPNQTIEVGQQRMDGRTLLNYARFRKDDDGDYGRTQRQQQVVSAIVNQIKDPSKLFTGSAAIGKIYALTSTNISYPFLIKEGLGVVTSGQKGIEQKTVPAEGDWTDDYDMYGGLGIAIDFNKYQKELKDLGLR
>NZ_CP013689.1|WP_020917047.1|1134433_1135795_-|23S-rRNA-(uracil(1939)-C(5))-methyltransferase-RlmD
MLEKNSIVEVEITDLSHEGAGVAKVDGFVFFVENALPGEKIKMRVLKVKKNIGFGKVEEYLIISKHRNQDLNVDYLRTGIADFGHLAYAEQLKFKRKQVADNLYKTAGISDVEVLETLGMEHPYAYRNKAQVPVRRVNGQLETGFFRKHSHDLMPISDFYIQNKEIDRLINFTRDLLRRFDLKPYDEKEETGLIRTLMVRRGHYSGEMMLVFVTTRPKIFRIEQIIEKIVAEFPAVKSIIQNINDKNTNVIFGKEFRTLYGKDTIVDSMLGNQYEISARSFYQVNTEMAEKLYQTAIDFSDLTADDIVIDAYSGIGTIGLSFAKNVKAVYGVEVIEEAVEDAKRNAALNGITNAHYVADSAEHAMATWSKNGIKPSVILVDPPRKGLTENFIKASVAMQPEKVTYISCNPATMARDIKLYQEFGYKLQKVQPVDLFPNTHHVETVVLMSRVNN
>NZ_CP013689.1|WP_043895267.1|1134034_1134247_-|type-II-toxin-antitoxin-system-Phd/YefM-family-antitoxin
MDKEDKVQKEPMEFYSMSDFLRGQPSKLITGLSDEDKTAFVLKNGKPIAVHISHERYERLLKAGIDITEY
>NZ_CP013689.1|WP_058814072.1|1133046_1133796_-|Crp/Fnr-family-transcriptional-regulator
MSKKDSKQDIRKKLYNPSSHIHHHKHEAGSQVSCISVVPIFNHLEEEQMEEIMKVMKSISYKKGEVLYREGDTSNVLYVVSNGKIRIYRLSESGKEQLLRILNPGDFTGELALFRESIHEAYAEAMIDTDVCMISKNDLQEFLLKYPTISLKILAEFSNRLEISEKQITRFVTEKVEARLALFLAECTDGGDSPTEIELPMSKKDLASYLGTTPETISRTLADFEEAGYIKQKRNRKIEILDLDGLLLI
>NZ_CP013689.1|WP_020917044.1|1132580_1132883_-|hypothetical-protein
MSKKLDFNQVKEIHLKTLAQYVPVVARVHGGNHPEFHQVREVYDKLAKKLKDTGRGKPDLVDEFVKLRKITDNYTVPEDVCESYEAVYNLLAELDKAYES
>NZ_CP013689.1|WP_058814071.1|1130681_1132529_-|heavy-metal-translocating-P-type-ATPase
MQKLILGRKNHITIVSAILIIIAYVSKLGFQNEPIAIWSLIIASVLGVIPIAIQAYQALRVKVVSIDVLVTIAVIGAFLIRNYKESAIVTFLFLFGAYLEQRTLNKTRSAIKELTEMAPEVALKQLKNGEFEEAEIDEVDVGDILLVKTGAKIPVDGTVLTGEGHINEASITGEAVPVSKKKDSGVYAGTILENGTIQITADRVGEDTTFGKIIELVEEAQDSKSEAERFIDRFSKYYTPAVLVLSFIVWMFSRDIELAITILVLGCPGALVIGVPVSNVAGIGNGARHGVLLKGSEVISDFSRLDTMVFDKTGTLTIGNPKVADKEIYADNVYEVLGYLASVEKESDHPLAKAVVEYIGDIKLYTIEKTDVVKGGGIVAHVEGHKVAVGNVALMEQENILLSEKARTDIARFEKDGNSLVLTSVDGELKALMGIRDQIRPGVKDDLKKLKKLGVKNLVVLSGDNQGTVDLVARELGLTEAHGHMLPEDKSAYIKVLQERGQIVAFVGDGVNDSPSLALAQIGIAMGNGTDVAIETSDVVLMNSDFSRLPHALGLTKATANNMLQNIIIAVGVVLVLLASVFFSDWMNMSIGMLVHEASILVVILNGMRLLRYKL
>NZ_CP013689.1|WP_058814077.1|1143425_1144475_-|CRISPR-associated-protein-Cas7
MRLHFTHPFKDNLDIHFGQFTQIIGQNQQLKYYMWQLFIWYFDGKKYSEEDLSLFNQEEPEILCEGKSLKRNDFSIISISDIKDLLEQMSYKKGTVAFDFMKINLDTVDVMEEIDEINDKLEKVSLTVNQALDLSIKDVTYHTESCMVTAEHLLSKYFQPYFEYQDKNIAFEFVDNEIKVMFLLKMLSEKLSNDTSNILLIFKNMDDYLDYASFIRICQVITRMADEFPNFYCTIFPSNESYLYVTKETIENITIVSDYIESLFDLDFMYERFVGRYPSNNVPTKKEFLILLQKNASYLFSEQISYVSLGISDMVAIKILNSLYHYDKSVKYPISEINQLEISFLKDKD
>NZ_CP013689.1|WP_006532624.1|1144471_1144795_-|CRISPR-associated-endonuclease-Cas2
MRYAAMRLLCFFDLPMETAQEKRTYRNFRKELIANGFEMLQFSVYYRTCPNRSFANKFYKRLQQSNLPAGNVRLLAVTEKQFSEMTLIVGGKTKQEEVVSDNKLVVI
>NZ_CP013689.1|WP_043878432.1|1144796_1145708_-|type-II-CRISPR-associated-endonuclease-Cas1
MTWRVVHVNQSEKMHLKLDNIVIKKQGEEYTIPLSDISIIVAEGGDTVVTLRLLSALSKFNIALIVCDNEHLPTGIYHAPNGHSRAYKRLQKQLEWSQEQKDKLWQIVTYFKINNQQDVLSLFERDIDAIQLLADYKDHIELGDKTNREGHAAKVYFNELFGKKFTRVTQQEADVINAGLNYGYAILRAQMARIVEGYGLNPLVGIFHKNEYNQFNLVDDLMEPFRQIVDVWVYQNLRDKEYLKYEYRLALTNLLNAKIKYGNENCTVTGAMDKYVQGFIKCIDKKDTSKFFCPVVSSLELES
>NZ_CP013689.1|WP_058814078.1|1145879_1149269_-|type-II-CRISPR-RNA-guided-endonuclease-Cas9
MSNGKILGLDIGVASVGVGIIDAKTGNVIHANSRLFSAANAENNAERRGFRGARRLTRRKKHRVKRVRDLFEKYDISTDFRNLNLNPYELRVKGLTEQLTNEELFAALRTIAKRRGISYLDDAEDDSTGSSDYAKSIDENRRLLKTKTPGQIQLERLEKYGQLRGNFTVYDENGEAHRLINVFSTSDYKNEARKILETQSNYNKQITDEFIEDYIEILTQKRKYYHGPGNEKSRTDYGRFRTDGTTLENIFGILIGKCSFYPEEYRASKASYTAQEFNFLNDLNNLKVPTETGKLSTEQKEYLVDFAKKSKALGASKLLKEIAKIVDCSVDDIKGYRVDNKDKPDLHTFEPYRKLKFNLSSIDIDELSRETLDKLADILTLNTEREGIEDTIKRNLPSQFTEEQISEIVQIRKNQSSAFNKGWHSFSAKLMNELIPELYVTSEEQMTILTRLEKFKVNKKSSKNTKTIDEKEITDEIYNPVVAKSVRQTIKIINAAVKKYGDFDKIVIEMPRDKNAEDEKKFIDKKEKENKKEKDDSLKRAAFLYNGTDNLPDGVFHGNKELKTKIRLWYQQGERCLYSGKLISIHDLVHNSNKFEIDHILPLSLSFDDSLANKVLVYAWTNQEKGQKTPYQVIDSMDAAWSFREMKDYVLKQKGIGKKKREYLLTTENIDKIEVKKKFIERNLVDTRYASRVVLNSLQTALKELGKDTKVSVVRGQFTSQLRRKWKIDKSRETYHHHAVDALIIAASGQLKLWQKHENLMFENYGENQVVNKETGEILSISDDEYKELVFQPPYQGFVNTISSKTFEDEILFSYQVDSKFNRKVSDATIYSTRKAKLGKDKKEETYVLGKIKDIYTQDGFDTFIKRYKKDKTQFLMYQKDPLTWENVIEVILRDYPSEKLSEDGKKTVKCNPFEEYRRENGLICKYSKKGNGTPIKSLKYYDKKLGNCIDITPEKSKNRVVLRQISPWRADIYFNLETLKYELMGLKYSDLSFEKGTGKYHISQEKYDAIREKEGIGKKSEFKFTLYRNDLILIKDTLNNCERMLRFGSKNDTSKHYVELKPLEKGTFDSEEEILPVLGKVAKSGQFIKGLNKPNISIYKVRTDVLGNKFFIKKEGDKPKLDFKNNNK
>NZ_CP013689.1|WP_058814079.1|1149373_1149790_-|nucleoside-diphosphate-kinase
MEKTFFMIKPDGVKRGLVGEVLHRIERRGFKIEKLEMRMATPELLEKHYEDLVDRPFFPLIVDFMTSGPVIAGVMSGEEVISSWRTMMGATNPKEALPGTIRGDYAQAPAEGAATFNIVHGSDSPESVEREIALWFGE
>NZ_CP013689.1|WP_148638783.1|1149907_1150072_-|type-II-toxin-antitoxin-system-HicB-family-antitoxin
MIKIYPVIFRTETNGSYWGEFPDFAGGTQDVNLEEAKRNAKEFLSGVHVEFVEV
>NZ_CP013689.1|WP_082661531.1|1150093_1150264_-|NADH-quinone-oxidoreductase-subunit-L
MTFVWYFWLLFAVAWIFAITFWVKSSNISQKCLRITYVICGIIAFLLPFFWGWLVS
>NZ_CP013689.1|WP_058814080.1|1150260_1150920_-|TIGR01906-family-membrane-protein
MKTKIWTFSTWLWLLSLAVLVAIYGAWLIYPLEIDWLKLSLQVTITKDELLKNFNILMTYLTNPLSHRLVMPDFHSSASGLKHFHDVKHLFHLAQAVFVILLYPSWRFLKNSRAEKSLFLHQRAFTLAAILPIIIAVAGLLIGFDQFFTLFHEALFPGDSSWLFNPATDPIIWILPEEYFMHCFIIFFVAYEVMMLSLVAIARKQLNHHLKNNERKDEK
>NZ_CP013689.1|WP_020917067.1|1150909_1151683_-|TIGR01457-family-HAD-type-hydrolase
MTYKGYLIDLDGTIYKGKNRIPAGERFIQRLQERNIPYVLVTNNSTRTPEKVQEMLSTQFNVHTPLETIYTATMATIDYMNDLNRGKTVYVIGETGLKTAIAEAGYVEDTENPAYVVVGLDNDLTYEKLAVATLAIQKGAVFIGTNPDLNIPTERGLMPGAGAINKLLEAATRVQPVFIGKPNAIIMNKALDVLGVKREEAIMVGDNYLTDIMAGIQNDIATLLVTTGFTKPEEVPTLPVKPNHVLASLDEWNFDEN
>NZ_CP013689.1|WP_058814081.1|1151747_1152371_-|NUDIX-hydrolase
MVVNDKKWIDWLVRLQSLAQAGLAYSRDKYDIERFEEIREISVSMMAELSQVPAQKVADLFANETGYQTPKIDTRAAIFQDDKILLVQESNGKWALPGGWCDVDQSVAENTLKEVKEEAGIDAILERVIAIQDREKLNQPVSAHKICKIFSLCQAKGGHFTKNLETIASGYFSYDSLPELAEAKTTKEQIAMCFDAYKDKNWKTLID

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Crispr_ID: NZ_CP013689_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP013689_2

1345129-1345355

Orphan

II-A,II-B

Consensus_repeat	Method
CTACCATGCTATTTTGAATGGTTCTAAAAC	CRT

3 spacers

csa3

The CRISPR arrays of NZ_CP013689_2

>merge|NZ_CP013689|2|1345129-1345355|CRT
CTACCATGCTATTTTGAATGGTTCTCAAACTATTCCGAATGTTTCAACGTTGAAACATTAATTTACTACCATGCTATTCTGAATGGCTCTAAAACCTCAAATGTTGCCATGTGTCAACATCTGGAACTTTACTACCATGTCTTTTTGAATGGTTCTAAAACAAGAATTACCAAATTTCGAAACGTTACGAATATTCGCTACCATGCTATTTTAAATAGTCCTAAAAC

>NZ_CP013689|2|2|1345129-1345355|CRT
CTACCATGCTATTTTGAATGGTTCTCAAAC	TATTCCGAATGTTTCAACGTTGAAACATTAATTTA
CTACCATGCTATTCTGAATGGCTCTAAAAC	CTCAAATGTTGCCATGTGTCAACATCTGGAACTTTA
CTACCATGTCTTTTTGAATGGTTCTAAAAC	AAGAATTACCAAATTTCGAAACGTTACGAATATTCG
CTACCATGCTATTTTAAATAGTCCTAAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP013689.1\|WP_058814170.1\|1354683_1355862_-\|phosphoglycerate-dehydrogenase	unknown	unknown	gnl\|CDD\|240651
NZ_CP013689.1\|WP_020917285.1\|1355973_1357065_-\|3-phosphoserine/phosphohydroxythreonine-transaminase	unknown	unknown	gnl\|CDD\|235428
NZ_CP013689.1\|WP_058814164.1\|1342951_1343269_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP013689.1\|WP_058814160.1\|1340991_1341885_-\|primase-C-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|214926
NZ_CP013689.1\|WP_020917282.1\|1349593_1350421_+\|exodeoxyribonuclease-III	unknown	unknown	gnl\|CDD\|197321
NZ_CP013689.1\|WP_058814165.1\|1343459_1344107_-\|Bro-N-domain-containing-protein	unknown	unknown	gnl\|CDD\|214989
NZ_CP013689.1\|WP_020917283.1\|1354237_1354594_-\|arsenate-reductase-family-protein	unknown	unknown	gnl\|CDD\|239334
NZ_CP013689.1\|WP_052317430.1\|1352700_1353564_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226951
NZ_CP013689.1\|WP_082661537.1\|1346761_1348420_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP013689.1\|WP_020917281.1\|1349120_1349402_-\|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl\|CDD\|238042
NZ_CP013689.1\|WP_020917280.1\|1348501_1349134_-\|SdpI-family-protein	unknown	unknown	gnl\|CDD\|227945
NZ_CP013689.1\|WP_082661554.1\|1345489_1346581_+\|site-specific-integrase	unknown	unknown	gnl\|CDD\|271189
NZ_CP013689.1\|WP_058814166.1\|1344220_1344427_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|224393
NZ_CP013689.1\|WP_058814163.1\|1342760_1342955_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP013689.1\|WP_058814162.1\|1342431_1342749_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274174
NZ_CP013689.1\|WP_082661536.1\|1344549_1345110_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NZ_CP013689.1\|WP_148638789.1\|1339331_1340816_-\|DNA-primase	unknown	unknown	gnl\|CDD\|273716
NZ_CP013689.1\|WP_058814161.1\|1341881_1342157_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|133390
NZ_CP013689.1\|WP_173636484.1\|1342262_1342421_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP013689.1\|WP_126402326.1\|1353795_1354026_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238488

Protein	Function_ID	Function_description	E-value
NZ_CP013689.1\|WP_058814170.1\|1354683_1355862_-\|phosphoglycerate-dehydrogenase	gnl\|CDD\|240651	cd12174, PGDH_like_3, Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains. Phosphoglycerate dehydrogenases (PGDHs) catalyze the initial step in the biosynthesis of L-serine from D-3-phosphoglycerate. PGDHs come in 3 distinct structural forms, with this first group being related to 2-hydroxy acid dehydrogenases, sharing structural similarity to formate and glycerate dehydrogenases of the D-specific 2-hydroxyacid dehydrogenase superfamily, which also include groups such as L-alanine dehydrogenase and S-adenosylhomocysteine hydrolase. Despite often low sequence identity, these proteins typically have a characteristic arrangement of 2 similar subdomains of the alpha/beta Rossmann fold NAD+ binding form. The NAD+ binding domain is inserted within the linear sequence of the mostly N-terminal catalytic domain, which has a similar domain structure to the internal NAD binding domain. Structurally, these domains are connected by extended alpha helices and create a cleft in which NAD is bound, primarily to the C-terminal portion of the 2nd (internal) domain. Some related proteins have similar structural subdomain but with a tandem arrangement of the catalytic and NAD-binding subdomains in the linear sequence. Many, not all, members of this family are dimeric.	4.07808e-154
NZ_CP013689.1\|WP_020917285.1\|1355973_1357065_-\|3-phosphoserine/phosphohydroxythreonine-transaminase	gnl\|CDD\|235428	PRK05355, PRK05355, 3-phosphoserine/phosphohydroxythreonine transaminase.	0
NZ_CP013689.1\|WP_020917283.1\|1354237_1354594_-\|arsenate-reductase-family-protein	gnl\|CDD\|239334	cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.	5.95445e-53
NZ_CP013689.1\|WP_058814160.1\|1340991_1341885_-\|primase-C-terminal-domain-containing-protein	gnl\|CDD\|214926	smart00942, PriCT_1, Primase C terminal 1 (PriCT-1). This alpha helical domain is found at the C terminal of primases.	4.33171e-14
NZ_CP013689.1\|WP_020917282.1\|1349593_1350421_+\|exodeoxyribonuclease-III	gnl\|CDD\|197321	cd09087, Ape1-like_AP-endo, Human Ape1-like subfamily of the ExoIII family apurinic/apyrimidinic (AP) endonucleases. This subfamily includes human Ape1 (also known as Apex, Hap1, or Ref-1) and related proteins. These are Escherichia coli exonuclease III (ExoIII)-like AP endonucleases and they belong to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds. AP endonucleases participate in the DNA base excision repair (BER) pathway. AP sites are one of the most common lesions in cellular DNA. During BER, the damaged DNA is first recognized by DNA glycosylase. AP endonucleases then catalyze the hydrolytic cleavage of the phosphodiester bond 5' to the AP site, and this is followed by the coordinated actions of DNA polymerase, deoxyribose phosphatase, and DNA ligase. If left unrepaired, AP sites block DNA replication, and have both mutagenic and cytotoxic effects. AP endonucleases can carry out a variety of excision and incision reactions on DNA, including 3'-5' exonuclease, 3'-deoxyribose phosphodiesterase, 3'-phosphatase, and occasionally, nonspecific DNase activities. Different AP endonuclease enzymes catalyze the different reactions with different efficiences. Many organisms have two AP endonucleases, usually one is the dominant AP endonuclease, the other has weak AP endonuclease activity; for example, Ape1 and Ape2 in humans. Ape1 is found in this subfamily, it exhibits strong AP-endonuclease activity but shows weak 3'-5' exonuclease and 3'-phosphodiesterase activities. Class II AP endonucleases have been classified into two families, designated ExoIII and EndoIV, based on their homology to the Escherichia coli enzymes exonuclease III (ExoIII) and endonuclease IV (EndoIV). This subfamily belongs to the ExoIII family; the EndoIV family belongs to a different superfamily.	3.39886e-117
NZ_CP013689.1\|WP_058814165.1\|1343459_1344107_-\|Bro-N-domain-containing-protein	gnl\|CDD\|214989	smart01040, Bro-N, BRO family, N-terminal domain. This family includes the N-terminus of baculovirus BRO and ALI motif proteins. The function of BRO proteins is unknown. It has been suggested that BRO-A and BRO-C are DNA binding proteins that influence host DNA replication and/or transcription. This Pfam domain does not include the characteristic invariant alanine, leucine, isoleucine motif of the ALI proteins.	2.05651e-12
NZ_CP013689.1\|WP_052317430.1\|1352700_1353564_-\|hypothetical-protein	gnl\|CDD\|226951	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms].	0.00336312
NZ_CP013689.1\|WP_020917280.1\|1348501_1349134_-\|SdpI-family-protein	gnl\|CDD\|227945	COG5658, COG5658, Predicted integral membrane protein [Function unknown].	4.40252e-18
NZ_CP013689.1\|WP_082661554.1\|1345489_1346581_+\|site-specific-integrase	gnl\|CDD\|271189	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons. This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.	1.17738e-43
NZ_CP013689.1\|WP_058814166.1\|1344220_1344427_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|224393	COG1476, COG1476, Predicted transcriptional regulators [Transcription].	8.34263e-14
NZ_CP013689.1\|WP_020917281.1\|1349120_1349402_-\|winged-helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238042	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.	6.85677e-21
NZ_CP013689.1\|WP_058814162.1\|1342431_1342749_-\|hypothetical-protein	gnl\|CDD\|274174	TIGR02516, type_III_yscC, type III secretion outer membrane pore, YscC/HrcC family. A number of proteins homologous to the type IV pilus secretin PilQ (TIGR02515) are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also called the main terminal branch of the general secretion pathway). The clade described by this model contains the outer membrane pore proteins of bacterial type III secretion systems, typified by YscC for animal pathogens and HrcC for plant pathogens. [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis].	0.00815798
NZ_CP013689.1\|WP_082661536.1\|1344549_1345110_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	1.38559e-12
NZ_CP013689.1\|WP_148638789.1\|1339331_1340816_-\|DNA-primase	gnl\|CDD\|273716	TIGR01613, putative_primase, phage/plasmid primase, P4 family, C-terminal domain. This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Prophage functions].	1.24277e-78
NZ_CP013689.1\|WP_058814161.1\|1341881_1342157_-\|hypothetical-protein	gnl\|CDD\|133390	cd04762, HTH_MerR-trunc, Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.	0.00607891
NZ_CP013689.1\|WP_126402326.1\|1353795_1354026_-\|hypothetical-protein	gnl\|CDD\|238488	cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.	0.00232368

>NZ_CP013689.1|WP_082661536.1|1344549_1345110_+|helix-turn-helix-transcriptional-regulator
MENSNKIIGNKIREIRLSKGETMEEFGKRFNTSKGTVNNWEKGRNKPNRTNMLKIAQLGGLTIGELMGFHVTLTPNTEEKIKGYRERQKRRVERFNEILDDNFKDFSLDEQVDQFMSIKDDYNNVFGNILRYVSYKNITGELSDEELKKLIPVTDFLKRHTDDYQVFVDIVNKHTSTENPTPPDND
>NZ_CP013689.1|WP_058814166.1|1344220_1344427_-|helix-turn-helix-domain-containing-protein
MNVKDKIRGYRTMLGLNQSEMGKALGISKQSYYNKENGKVAFSDSEKMVFKKMLEPYFSDITLEDIFF
>NZ_CP013689.1|WP_058814165.1|1343459_1344107_-|Bro-N-domain-containing-protein
MEIIKREKGEFGEIKIDFYLNKDRAILVTIEQLAQGFGYKNRKGIEKMIERNPYLKEEKFSVADKLSGADGKKYETRLFNKRGIFEIGMLSRTEKGKAFRAWIYDYIEELEKENANFRFQRALEKPTHKTLNEVISKWDNAPTMAFPTVNNLLLKLSSGKNKKKLIEDRGGKTGLDCLTSVELAKYQAYERAVIPLIELNMEYGVIRDTLKQVQL
>NZ_CP013689.1|WP_058814164.1|1342951_1343269_-|hypothetical-protein
MKFKGVKNKANPFSLDHYTDEQKAVFKKRDETKKRAEEFFKAMYDQSTAWTIVANVMITYHNIYTGFAETFEQAWNALGYEITTDIVYRAVNNLPARGMKEEVKA
>NZ_CP013689.1|WP_058814163.1|1342760_1342955_-|hypothetical-protein
MIYQEINLPVWAQLVLMAFWLLALVLLLYIKPREDVKQETKETRADHVKERYGAYIQLRGRYYN
>NZ_CP013689.1|WP_058814162.1|1342431_1342749_-|hypothetical-protein
MKLYHYSQFTNLASIKENGLHVGADNVVYLAESPMLARAFAYIYGLKDYALFEVSVTLDDIEKSTDHNEDYFKKLTGELSAECYSCKHNIPADRVTFLGCYSFSD
>NZ_CP013689.1|WP_173636484.1|1342262_1342421_-|hypothetical-protein
MTDKELNKIADLINERVTFAELEEFKHLEQRVDRIVWVKNQIAKLDKGEILL
>NZ_CP013689.1|WP_058814161.1|1341881_1342157_-|hypothetical-protein
MEINLLSNETEQALIGGILTKVGTYLERYESLENPLGIISQREATERLEVSYPTLRRWEARGLKRYMPPIADTKTVYYKVTDLLAFLGVEE
>NZ_CP013689.1|WP_058814160.1|1340991_1341885_-|primase-C-terminal-domain-containing-protein
MSIYYTKGIQNSRLFLYDDNKDKFTSTEPFEFFKEFPAVETKGMDIKEFKKNHAPYCISGKVKKDKDDVYRRNDSNLIYRDLIFLDYDNITLSSEEFKATVERAIGEYSYIIYPTIKHTEEKPRFRLVVKPSEPMNKETYKSVVTEIAEKIGLMYDTASLTWSQLQGLPVTVGKRHEYVKTVHRGKDYPVPKYEGSKPATIKQTNTNGYSIRSPNERKSLTVKIIETLFNGFGEEGGRNVVCASFVGMLFNRYVNFDIATAYQLTVMANNNTPEPLPEKELDTTFESIAKKELTNRI
>NZ_CP013689.1|WP_148638789.1|1339331_1340816_-|DNA-primase
MKSPKALSKLSKIKDDDLNADLERQLVEGKAVEHAEKVKSKASPKTPLQCSIFLRKYIRFVRIRPEGKGQKAPLYFYDPDSGIYSEDNELLQDLMATIYPNITERQAIDTLYKISHSVPLKNKQNNFVVIGSELYNNQTGEFNPFNPNVIATRKVKAEYNPNATEPTINGWKPTEWLRGLFNHDKESYDLAIQIIRATVTGKTLDNIFWLHGVGGTGKGTFQALLENLVGAENTASFKIDEKNGRFDTSILIGKSVVIGDDVQKDVVIKDTSIVFSLATGDPIRIEDKGKRPYTTRLKMTVVQSSNGFPRMNADKNAIDRRFRVLSFSELKGKPDNRIKNDYINRPEVLEYLVKLAIETPFKDIEPQRSIDFLNEEYKEMNPVADFVDRFFNDDVIQCKYVPNGYVFECFKAYCKQHQNSKYFLNEVSLHKQIKPLLPKTFSPHAVTIPKGKKFYNDFNPKLVFNPWHFGEYYNGREHEKNQKKSKKERGYKRV
>NZ_CP013689.1|WP_082661554.1|1345489_1346581_+|site-specific-integrase
MTGKQVYTTVSAPTKKELKQKREFKINEFKDNGYTRYKSVTVKNYRELSELWLKNHKLEVKPQTYSQTVSELRTHLLPVFGDMKVERITLPMVQEFVNKLASNDKLGRVSFRIILSINKRILKYAVNLQIINVNPADNVIVPKNKKNISKKKELKFFETSQLKQFKDYLDSLPNTFKNYYHKTLYLTLLSTGLRIGEAVALEWSDIDLDNGYIDVNKTVAFSRMETNSTKSEAGNRKISIDKNTVLMLRLYKARQYQCFMEHGYSSKMAKYVFSNGFNIYPNRTNLQLVLTKHLKQAGLPRFTFHAFRHTHASLLLNAGISYKELQHRLGHSTLAMTMDIYSHLSKEKEKDAVNFFEKAMANL
>NZ_CP013689.1|WP_082661537.1|1346761_1348420_-|hypothetical-protein
MKKTVSYWLIALWFLVMLISYWIFLPPINIFSVAFWLFVLEGLALAFGGLALLSLGGKVQQVTFQMTGSRARKVVSAPRPTFGKVLSAISFAIAAILLILGASTFLNSRLFRAKSYANVIKVKDADFASDFPETDISHLALLDRSSAKKIGDTYLGTIDKVSQFGISDDYRQVTIGEQPYRVSPLEYKSFWKWFSNHKDGIGYYVKVNQTTGKAALVKLDKGMKYSDSEYFFNDTLRYLRLKYPTVIFGDPSFEVDDKGNPYYVATTYKPKFLLTSNDPTGAILLNAVTGETKRYDLNDVPKWVDRVFSANNVISRVDDYYTYQKGFWNTVFSQTDVKKITDSYNYISIGSDIYLYTGITSATADSSNLGFILVNMRTREVTNYKLASATETAAQESAEGEVQEKHYEATAPTLVKLDGKAYYLVSLKDAAGLVKSYAIVDAEDYQQVTVDNDIETLITKFTDSDTSALSGVADNSGEAKKVKVITGVVDKLASQMISGSTVYYISSSGEIYKVKATTDTTDKLPFLAVGDEFKGELQDDNYLTKFEVTNQE
>NZ_CP013689.1|WP_020917280.1|1348501_1349134_-|SdpI-family-protein
MKMNKKQPILTSFVIVLPALLGAFFWNALPEQVPTHFGIDGKADGYSSKLFALVAFPILFVIFQIIALASLEKESVKVAAPAKMRKLYAWIVPAFSFIVQGSIYANALGWVKSSPTLVTAFLGIIFIILGNYLPKTHRNHTIGIRTPWTLSDDKNWYKTHRMAGKLWVLGGLLILLESFVQVAMPYVMGVVIAIMIIAPMIYSFFLSRKA
>NZ_CP013689.1|WP_020917281.1|1349120_1349402_-|winged-helix-turn-helix-transcriptional-regulator
MAFAETFKALSHPIRREILTLLKENSLIAGEIASHFDLSGATISHHLSILKKAGLVVERREKNFIYYELCTSVLEDIMTWLADLKEKSEDENE
>NZ_CP013689.1|WP_020917282.1|1349593_1350421_+|exodeoxyribonuclease-III
MKLISWNIDSINAALTSDSARAVLSRAVIDTLVAEDADIIAIQETKLSAKGPTKKHLQILNDYFPDYEISWRSSVEPARKGYAGTMFLYKKGLTPEISFPEIGAPDTMDSEGRIITLEFDNFYVTQVYTPNAGEGLKRLAERQLWDEKYAQYLAELDQKKPVLATGDYNVAHQEIDLANPNSNRRSAGFTDEERAGFTNLLAKGFIDTFRHLHGNVPNVYSWWAQRSKTSKINNTGWRIDYWLTSNRIADKVTKSEMIDSGARQDHTPIILEIDL
>NZ_CP013689.1|WP_052317430.1|1352700_1353564_-|hypothetical-protein
MVLYITLLPFFIDIFWRASILKEAATKLSLFSRIVMGYSLVTILIFILVQEFSLPLIFVKYLSDGIFYVSFSILLILAAFSLVKDYPSFLLQKVNLILLTLLSLIPLLFLPIMGAVNHLIVNRLTITRTHLSLPVVYILEAIVSTFLMISFTVMMKFMLIWLVVVYCFLFILCSLPIIKDFMDMAKQLNYRLDGQTIFSAVEMKREDIAITIHDTIIQEVIYHKKQIESAGDVDKSEVLNTLDDVVFELRELCSNIYPLMIKELGLKNAILELLNKFQIGNNSFQCF
>NZ_CP013689.1|WP_126402326.1|1353795_1354026_-|hypothetical-protein
MGCIILLFTSHHHYLGVEADFKNGNWRVTDIHNGGLAKETELSEGDILLKIDQQESSKNVLLNKWLIVEQAKSVLV
>NZ_CP013689.1|WP_020917283.1|1354237_1354594_-|arsenate-reductase-family-protein
MFTFYEYPKCSTCRRAKAELKELGADFEAIDITLDTPKADQIKSWIENSSFTVKNFFNTSGQAYRALGLKDKVDALTVDEAADLLASDGMLIKRPVLVKDGKVLQLGHRKSYTELLKD
>NZ_CP013689.1|WP_058814170.1|1354683_1355862_-|phosphoglycerate-dehydrogenase
MVYSVKTFNNINQVGLKELGNQFQVDGDLAENPDAFILRSQNLHGVEFPENLKAIARAGAGTNNIPIADATAAGIVVFNTPGANANAVKEAVLASILMSARDYIAANAWVNTLSGDDVPKQVEAGKKQFAGNEISGKTLGVIGLGAIGGRIANYAQRLGMNVLGYDPYVSIETAWNISHHVKRVDDVKEIFANCDYITVHVPLTDETHHTFDSEAFGLMQKETVVINFARGELVDNVALFEAIEAGIVKRYITDFGTEELLNKDKITVFPHVGGSTAEAELNCAIMAGKTIRQFMETGEITNSVNFPNVHQALTAPYRITLINKNVPNIVAKISTAVSELGINIDNIINRSKGDYAYTLLDLDETDKAKVDHLVANFEASDNIIRVRLIAKK
>NZ_CP013689.1|WP_020917285.1|1355973_1357065_-|3-phosphoserine/phosphohydroxythreonine-transaminase
MTIYNFSAGPAVLPKPVLEQAQREMLDYQGSGMSVLEMSHRSKEFDNIIKEAEKLLRELMAIPDNYKVMFLQGGASTQFTMLPLNLAKGRKAYYLVGGSWGKKAYAEAVKLSKSVPFEPVLLASSEDTVYDHIPTFDSKDIDPEAAYVHITTNNTIEGTSIYDLPDTNGVPIVADMSSNILAVRYNVEDFALIYAGAQKNIGPAGVTVVIVREDFLNDEPTLSAMLDYRIQAEAGSLYNTPPAYSIYIAKLVFDWVKAFGGVDKMEAANREKSGLLYDFIDQSDFYTNPVKNPAERSVANIPFVTPSKELDAKFVVEATPLGFKNIKGHRSVGGMRASLYNAFPRQGVLDLIEFMKKFEAENK

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	NZ_CP013689.1	691790-691825	0	1.0

1. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to position: 691790-691825, mismatch: 0, identity: 1.0

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
aagaattaccaaatttcgaaacgttacgaatattcg	Protospacer
************************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP013689_2	2.2\|1345224\|36\|NZ_CP013689\|CRT	1345224-1345259	36	MK448483	Streptococcus satellite phage Javan415, complete genome	1322-1357	0	1.0
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	MK448483	Streptococcus satellite phage Javan415, complete genome	1256-1291	0	1.0
NZ_CP013689_1	1.3\|1142373\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142373-1142402	30	MG708275	Streptococcus phage vB_SthS_VA460, complete genome	5721-5750	2	0.933
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NZ_CP038176	Enterococcus faecium strain HN11 plasmid pHN11, complete sequence	63647-63675	5	0.828
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NC_010330	Enterococcus faecium plasmid pRI1, complete sequence	3559-3587	5	0.828
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NC_010291	Enterococcus faecium plasmid pJS42, complete sequence	153-181	5	0.828
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NZ_LR135173	Enterococcus faecium isolate E4227 plasmid 4	549-577	5	0.828
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NZ_CP029169	Staphylococcus aureus strain PTDrAP2 plasmid pPTDrAP2b, complete sequence	453-481	5	0.828
NZ_CP013689_1	1.13\|1143035\|29\|NZ_CP013689\|CRISPRCasFinder,CRT	1143035-1143063	29	LK031773	Criblamydia sequanensis plasmid 1, strain CRIB-18, complete sequence	86483-86511	5	0.828
NZ_CP013689_1	1.13\|1143035\|29\|NZ_CP013689\|CRISPRCasFinder,CRT	1143035-1143063	29	NC_031024	Bacillus phage Belinda, complete genome	120922-120950	5	0.828
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	MK373770	Escherichia phage vB_EcoP_WFI101126, complete genome	41854-41879	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	NC_018835	Enterobacteria phage NJ01, complete genome	49352-49377	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	MN715356	Escherichia phage vB_EcoP_EcoN5, complete genome	40430-40455	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	JX867715	Enterobacteria phage NJ01,complete sequence	49352-49377	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	MN045231	Escherichia phage Paul, complete genome	44952-44977	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	MN148435	Shigella phage SGF2, complete genome	45507-45532	5	0.808
NZ_CP013689_1	1.19\|1143308\|26\|NZ_CP013689\|PILER-CR	1143308-1143333	26	KP308307	Escherichia phage 172-1, complete genome	52242-52267	5	0.808
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	MH892361	Streptococcus phage SW12, complete genome	866-901	5	0.861
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	KY705260	Streptococcus phage P5651, complete genome	372-407	5	0.861
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	KY705262	Streptococcus phage P7132, complete genome	372-407	5	0.861
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	KY705265	Streptococcus phage P7151, complete genome	372-407	5	0.861
NZ_CP013689_1	1.10\|1142837\|29\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142837-1142865	29	NZ_KX785323	Streptococcus suis strain 3372 plasmid unnamed2, complete sequence	3689-3717	6	0.793
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	MK448882	Streptococcus phage Javan242, complete genome	3635-3670	6	0.833
NZ_CP013689_1	1.3\|1142373\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142373-1142402	30	EU545650	Acidianus filamentous virus 9, complete genome	8563-8592	7	0.767
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NC_017071	Selenomonas ruminantium subsp. lactilytica TAM6421 plasmid pSRC8, complete sequence	963-992	7	0.767
NZ_CP013689_1	1.8\|1142705\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142705-1142734	30	MN692959	Marine virus AFVG_117M52, complete genome	45611-45640	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	LT603679	Enterococcus faecium isolate Ef_DMG1500501 genome assembly, plasmid: 2	218496-218525	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_CP018073	Enterococcus faecium strain VRE001 plasmid unnamed3, complete sequence	103812-103841	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_CP027498	Enterococcus faecium strain AUSMDU00004167 plasmid unnamed1, complete sequence	199896-199925	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	MT074686	Enterococcus faecium strain E1077 plasmid pE1077-217, complete sequence	204608-204637	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_LR135783	Enterococcus faecium isolate E4239 plasmid 2	165640-165669	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_LR135429	Enterococcus faecium isolate E8927 plasmid 2	202767-202796	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NC_021987	Enterococcus faecium Aus0085 plasmid p1, complete sequence	99639-99668	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_AP019395	Enterococcus faecium strain QU 50 plasmid pQL50, complete sequence	189490-189519	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_CP045013	Enterococcus faecium strain LAC7.2 plasmid pI, complete sequence	199266-199295	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_AP022342	Enterococcus faecium strain KUHS13 plasmid pKO1, complete sequence	246045-246074	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_LR135171	Enterococcus faecium isolate E4227 plasmid 2	168291-168320	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_LR135308	Enterococcus faecium isolate E7240 plasmid 2	149604-149633	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_CP041256	Enterococcus faecium strain 515 plasmid p26, complete sequence	136779-136808	7	0.767
NZ_CP013689_1	1.9\|1142771\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142771-1142800	30	NZ_CP019993	Enterococcus faecium isolate 2014-VREF-268 plasmid p268-1, complete sequence	22139-22168	7	0.767
NZ_CP013689_1	1.12\|1142969\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1142969-1142998	30	NC_018223	Enterococcus faecalis D32 plasmid EFD32pB, complete sequence	13420-13449	7	0.767
NZ_CP013689_1	1.13\|1143035\|29\|NZ_CP013689\|CRISPRCasFinder,CRT	1143035-1143063	29	NZ_CP038617	Arsenophonus nasoniae strain FIN plasmid pArsFIN5, complete sequence	92552-92580	7	0.759
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	NC_019500	Enterobacteria phage Bp7, complete genome	54956-54985	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	MT682711	Escherichia phage vB_EcoM_FB, complete genome	12681-12710	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	MH791409	UNVERIFIED: Escherichia phage EcWhh-1, complete genome	74762-74791	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	KU878968	Escherichia phage WG01, complete genome	12913-12942	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	MK295203	Escherichia phage vB_EcoM_005, complete genome	127119-127148	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	MH051913	Enterobacteria phage vB_EcoM_IME281, complete genome	159597-159626	7	0.767
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	KU878969	Escherichia phage MX01, complete genome	12464-12493	7	0.767
NZ_CP013689_1	1.16\|1143232\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143232-1143261	30	MN693872	Marine virus AFVG_250M911, complete genome	19113-19142	7	0.767
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP013058	Bacillus thuringiensis strain YWC2-8 plasmid pYWC2-8-3, complete sequence	13952-13982	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP007614	Bacillus thuringiensis serovar kurstaki str. YBT-1520 plasmid pBMB95, complete sequence	18713-18743	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	CP020756	Bacillus thuringiensis strain ATCC 10792 plasmid pLDW-17, complete sequence	82580-82610	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP004875	Bacillus thuringiensis serovar kurstaki str. HD-1 plasmid pBMB95, complete sequence	61218-61248	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NC_017202	Bacillus thuringiensis serovar chinensis CT-43 plasmid pCT127, complete sequence	120119-120149	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP011357	Bacillus thuringiensis strain YC-10 plasmid pYC20, complete sequence	75387-75417	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP015155	Bacillus thuringiensis strain Bc601 plasmid pBTBC5, complete sequence	7483-7513	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP004868	Bacillus thuringiensis serovar kurstaki str. YBT-1520 plasmid pBMB94, complete sequence	75285-75315	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP010110	Bacillus thuringiensis serovar indiana strain HD521 plasmid pBTHD521-4, complete sequence	39020-39050	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NC_020393	Bacillus thuringiensis serovar thuringiensis str. IS5056 plasmid pIS56-107, complete sequence	95227-95257	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP021063	Bacillus thuringiensis strain ATCC 10792 plasmid poh2, complete sequence	55673-55703	8	0.742
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NC_020239	Bacillus thuringiensis serovar kurstaki str. HD73 plasmid pHT77, complete sequence	69859-69889	8	0.742
NZ_CP013689_1	1.15\|1143166\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143166-1143195	30	MN693518	Marine virus AFVG_25M99, complete genome	1422-1451	8	0.733
NZ_CP013689_1	1.1\|1142240\|31\|NZ_CP013689\|CRISPRCasFinder,CRT	1142240-1142270	31	NZ_CP010092	Bacillus thuringiensis serovar galleriae strain 4G5 plasmid pBMB126, complete sequence	28172-28202	9	0.71
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897276	Clostridium botulinum strain INGR16-02E1 plasmid pINGR16-02E1, complete sequence	115293-115322	9	0.7
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897280	Clostridium botulinum strain FI1111E1 plasmid pFI1111E1, complete sequence	125019-125048	9	0.7
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897275	Clostridium botulinum strain IFR 12/29 plasmid p12/29, complete sequence	120223-120252	9	0.7
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897277	Clostridium botulinum strain ST0210E1 plasmid pST0210E1, complete sequence	115293-115322	9	0.7
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897278	Clostridium botulinum strain FWSKR40E1 plasmid pFWSKR40E1, complete sequence	122444-122473	9	0.7
NZ_CP013689_1	1.7\|1142639\|30\|NZ_CP013689\|CRISPRCasFinder,CRT,PILER-CR	1142639-1142668	30	NZ_KT897279	Clostridium botulinum strain SWKR38E2 plasmid pSWKR38E2, complete sequence	123580-123609	9	0.7
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	KC954775	UNVERIFIED: Cronobacter phage S13, complete genome	112225-112254	9	0.7
NZ_CP013689_1	1.14\|1143100\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143100-1143129	30	NC_028773	Cronobacter phage S13, complete genome	112225-112254	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	MK373770	Escherichia phage vB_EcoP_WFI101126, complete genome	41853-41882	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	NC_018835	Enterobacteria phage NJ01, complete genome	49351-49380	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	MN715356	Escherichia phage vB_EcoP_EcoN5, complete genome	40429-40458	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	JX867715	Enterobacteria phage NJ01,complete sequence	49351-49380	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	MN045231	Escherichia phage Paul, complete genome	44951-44980	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	MN148435	Shigella phage SGF2, complete genome	45506-45535	9	0.7
NZ_CP013689_1	1.17\|1143298\|30\|NZ_CP013689\|CRISPRCasFinder,CRT	1143298-1143327	30	KP308307	Escherichia phage 172-1, complete genome	52241-52270	9	0.7
NZ_CP013689_2	2.1\|1345159\|35\|NZ_CP013689\|CRT	1345159-1345193	35	MK448392	Streptococcus satellite phage Javan27, complete genome	3680-3714	9	0.743
NZ_CP013689_2	2.1\|1345159\|35\|NZ_CP013689\|CRT	1345159-1345193	35	MK448336	Streptococcus satellite phage Javan15, complete genome	3139-3173	9	0.743
NZ_CP013689_2	2.1\|1345159\|35\|NZ_CP013689\|CRT	1345159-1345193	35	MK448660	Streptococcus satellite phage Javan9, complete genome	3140-3174	9	0.743
NZ_CP013689_2	2.1\|1345159\|35\|NZ_CP013689\|CRT	1345159-1345193	35	MK448370	Streptococcus satellite phage Javan22, complete genome	3680-3714	9	0.743
NZ_CP013689_2	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	MK448600	Streptococcus satellite phage Javan652, complete genome	8396-8431	10	0.722

1. spacer 2.2|1345224|36|NZ_CP013689|CRT matches to MK448483 (Streptococcus satellite phage Javan415, complete genome) position: , mismatch: 0, identity: 1.0

ctcaaatgttgccatgtgtcaacatctggaacttta	CRISPR spacer
ctcaaatgttgccatgtgtcaacatctggaacttta	Protospacer
************************************

2. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to MK448483 (Streptococcus satellite phage Javan415, complete genome) position: , mismatch: 0, identity: 1.0

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
aagaattaccaaatttcgaaacgttacgaatattcg	Protospacer
************************************

3. spacer 1.3|1142373|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to MG708275 (Streptococcus phage vB_SthS_VA460, complete genome) position: , mismatch: 2, identity: 0.933

cctttcccagaaattaattcgctgattaaa	CRISPR spacer
ccttttccagaaatcaattcgctgattaaa	Protospacer
*****.********.***************

4. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP038176 (Enterococcus faecium strain HN11 plasmid pHN11, complete sequence) position: , mismatch: 5, identity: 0.828

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tgtacattcgaatttgtcgttcactggca	Protospacer
*.**********.******.***** *.*

5. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NC_010330 (Enterococcus faecium plasmid pRI1, complete sequence) position: , mismatch: 5, identity: 0.828

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tgtacattcgaatttgtcgttcactggca	Protospacer
*.**********.******.***** *.*

6. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NC_010291 (Enterococcus faecium plasmid pJS42, complete sequence) position: , mismatch: 5, identity: 0.828

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tgtacattcgaatttgtcgttcactggca	Protospacer
*.**********.******.***** *.*

7. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR135173 (Enterococcus faecium isolate E4227 plasmid 4) position: , mismatch: 5, identity: 0.828

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tgtacattcgaatttgtcgttcactggca	Protospacer
*.**********.******.***** *.*

8. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP029169 (Staphylococcus aureus strain PTDrAP2 plasmid pPTDrAP2b, complete sequence) position: , mismatch: 5, identity: 0.828

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tgtacattcgaatttgtcgttcactggca	Protospacer
*.**********.******.***** *.*

9. spacer 1.13|1143035|29|NZ_CP013689|CRISPRCasFinder,CRT matches to LK031773 (Criblamydia sequanensis plasmid 1, strain CRIB-18, complete sequence) position: , mismatch: 5, identity: 0.828

ttcaaat---gtttctgctgaaagattgatag	CRISPR spacer
---aagtcccgtctctgctgaaagattgatag	Protospacer
   **.*   **.*******************

10. spacer 1.13|1143035|29|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_031024 (Bacillus phage Belinda, complete genome) position: , mismatch: 5, identity: 0.828

ttcaaatgtttctgctgaaagattgatag	CRISPR spacer
tttagctgtttctggtgtaagattgatag	Protospacer
**.*. ******** ** ***********

11. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to MK373770 (Escherichia phage vB_EcoP_WFI101126, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

12. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to NC_018835 (Enterobacteria phage NJ01, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

13. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to MN715356 (Escherichia phage vB_EcoP_EcoN5, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

14. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to JX867715 (Enterobacteria phage NJ01,complete sequence) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

15. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to MN045231 (Escherichia phage Paul, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

16. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to MN148435 (Shigella phage SGF2, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

17. spacer 1.19|1143308|26|NZ_CP013689|PILER-CR matches to KP308307 (Escherichia phage 172-1, complete genome) position: , mismatch: 5, identity: 0.808

cttcagtagtcaaacgatctttacca	CRISPR spacer
attcagtagttaaacaatctttacag	Protospacer
 *********.****.******** .

18. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to MH892361 (Streptococcus phage SW12, complete genome) position: , mismatch: 5, identity: 0.861

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
acgaactaccaaatttcgaaacgttacgaaatttag	Protospacer
* ***.************************  ** *

19. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to KY705260 (Streptococcus phage P5651, complete genome) position: , mismatch: 5, identity: 0.861

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
acgaactaccaaatttcgaaacgttacgaaatttag	Protospacer
* ***.************************  ** *

20. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to KY705262 (Streptococcus phage P7132, complete genome) position: , mismatch: 5, identity: 0.861

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
acgaactaccaaatttcgaaacgttacgaaatttag	Protospacer
* ***.************************  ** *

21. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to KY705265 (Streptococcus phage P7151, complete genome) position: , mismatch: 5, identity: 0.861

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
acgaactaccaaatttcgaaacgttacgaaatttag	Protospacer
* ***.************************  ** *

22. spacer 1.10|1142837|29|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KX785323 (Streptococcus suis strain 3372 plasmid unnamed2, complete sequence) position: , mismatch: 6, identity: 0.793

tatacattcgaacttgtcgctcacttgta	CRISPR spacer
tatacattcgaacttgtcgttcggacgaa	Protospacer
*******************.**.  .* *

23. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to MK448882 (Streptococcus phage Javan242, complete genome) position: , mismatch: 6, identity: 0.833

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
aagaattgccaaatgtcgaaacgttacgacatttag	Protospacer
*******.****** **************   ** *

24. spacer 1.3|1142373|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to EU545650 (Acidianus filamentous virus 9, complete genome) position: , mismatch: 7, identity: 0.767

cctttcccagaaattaattcgctgattaaa	CRISPR spacer
aatgtttcagatattatttcgctgattaaa	Protospacer
  * *..**** **** *************

25. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NC_017071 (Selenomonas ruminantium subsp. lactilytica TAM6421 plasmid pSRC8, complete sequence) position: , mismatch: 7, identity: 0.767

ggttataacagccataaaaaaggactagct	CRISPR spacer
aattataacagcaataaaaaatgactgggc	Protospacer
..********** ******** ****.* .

26. spacer 1.8|1142705|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to MN692959 (Marine virus AFVG_117M52, complete genome) position: , mismatch: 7, identity: 0.767

cactcactacctcgctaaatttattcttta	CRISPR spacer
tacgcactacctccctaaatttattaatac	Protospacer
.** ********* ***********  *

27. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to LT603679 (Enterococcus faecium isolate Ef_DMG1500501 genome assembly, plasmid: 2) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

28. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP018073 (Enterococcus faecium strain VRE001 plasmid unnamed3, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

29. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP027498 (Enterococcus faecium strain AUSMDU00004167 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

30. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to MT074686 (Enterococcus faecium strain E1077 plasmid pE1077-217, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

31. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR135783 (Enterococcus faecium isolate E4239 plasmid 2) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

32. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR135429 (Enterococcus faecium isolate E8927 plasmid 2) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

33. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NC_021987 (Enterococcus faecium Aus0085 plasmid p1, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

34. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_AP019395 (Enterococcus faecium strain QU 50 plasmid pQL50, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

35. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP045013 (Enterococcus faecium strain LAC7.2 plasmid pI, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

36. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_AP022342 (Enterococcus faecium strain KUHS13 plasmid pKO1, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

37. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR135171 (Enterococcus faecium isolate E4227 plasmid 2) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

38. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR135308 (Enterococcus faecium isolate E7240 plasmid 2) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

39. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP041256 (Enterococcus faecium strain 515 plasmid p26, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

40. spacer 1.9|1142771|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP019993 (Enterococcus faecium isolate 2014-VREF-268 plasmid p268-1, complete sequence) position: , mismatch: 7, identity: 0.767

tgtatttcaatgaaataatgtggcacttca	CRISPR spacer
tagaaatcaatcaaataatatggcacttcc	Protospacer
*. *  ***** *******.*********

41. spacer 1.12|1142969|30|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_018223 (Enterococcus faecalis D32 plasmid EFD32pB, complete sequence) position: , mismatch: 7, identity: 0.767

tgtgtatggattagattcgtcacttggtga	CRISPR spacer
agtacttggatcatattcgtcacttggtgt	Protospacer
 **.. *****.* ***************

42. spacer 1.13|1143035|29|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP038617 (Arsenophonus nasoniae strain FIN plasmid pArsFIN5, complete sequence) position: , mismatch: 7, identity: 0.759

ttcaaatgtttctgctgaaagattgatag	CRISPR spacer
tgagaatgttgatgctgaaagattgatga	Protospacer
*  .******  ***************..

43. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_019500 (Enterobacteria phage Bp7, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

44. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MT682711 (Escherichia phage vB_EcoM_FB, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

45. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MH791409 (UNVERIFIED: Escherichia phage EcWhh-1, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

46. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to KU878968 (Escherichia phage WG01, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

47. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MK295203 (Escherichia phage vB_EcoM_005, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

48. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MH051913 (Enterobacteria phage vB_EcoM_IME281, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

49. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to KU878969 (Escherichia phage MX01, complete genome) position: , mismatch: 7, identity: 0.767

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
caagttcgttgacaaggtcaacaggcggct	Protospacer
**********.****.*******. .*..*

50. spacer 1.16|1143232|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MN693872 (Marine virus AFVG_250M911, complete genome) position: , mismatch: 7, identity: 0.767

cattcaatgtttcagcttctagcttcttaa	CRISPR spacer
taaacaatgtttcagcttcttgcttcgtgc	Protospacer
.*  **************** ***** *.

51. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP013058 (Bacillus thuringiensis strain YWC2-8 plasmid pYWC2-8-3, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

52. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP007614 (Bacillus thuringiensis serovar kurstaki str. YBT-1520 plasmid pBMB95, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

53. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to CP020756 (Bacillus thuringiensis strain ATCC 10792 plasmid pLDW-17, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

54. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP004875 (Bacillus thuringiensis serovar kurstaki str. HD-1 plasmid pBMB95, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

55. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_017202 (Bacillus thuringiensis serovar chinensis CT-43 plasmid pCT127, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

56. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP011357 (Bacillus thuringiensis strain YC-10 plasmid pYC20, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

57. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP015155 (Bacillus thuringiensis strain Bc601 plasmid pBTBC5, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

58. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP004868 (Bacillus thuringiensis serovar kurstaki str. YBT-1520 plasmid pBMB94, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

59. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP010110 (Bacillus thuringiensis serovar indiana strain HD521 plasmid pBTHD521-4, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

60. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_020393 (Bacillus thuringiensis serovar thuringiensis str. IS5056 plasmid pIS56-107, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

61. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP021063 (Bacillus thuringiensis strain ATCC 10792 plasmid poh2, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

62. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_020239 (Bacillus thuringiensis serovar kurstaki str. HD73 plasmid pHT77, complete sequence) position: , mismatch: 8, identity: 0.742

acaaaataagggcaaaagccaaag-----aatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagctagaaa-----	Protospacer
 ********.*********.****     **

63. spacer 1.15|1143166|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MN693518 (Marine virus AFVG_25M99, complete genome) position: , mismatch: 8, identity: 0.733

tgattaaacgcatagaattttgttatattt	CRISPR spacer
gaatgaaacgcatataattttgttaaacgc	Protospacer
 .** ********* ********** *. .

64. spacer 1.1|1142240|31|NZ_CP013689|CRISPRCasFinder,CRT matches to NZ_CP010092 (Bacillus thuringiensis serovar galleriae strain 4G5 plasmid pBMB126, complete sequence) position: , mismatch: 9, identity: 0.71

acaaaataagggcaaaagccaaagaatctgc	CRISPR spacer
ccaaaataaaggcaaaagctaaagcaagaaa	Protospacer
 ********.*********.**** *   .

65. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897276 (Clostridium botulinum strain INGR16-02E1 plasmid pINGR16-02E1, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

66. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897280 (Clostridium botulinum strain FI1111E1 plasmid pFI1111E1, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

67. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897275 (Clostridium botulinum strain IFR 12/29 plasmid p12/29, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

68. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897277 (Clostridium botulinum strain ST0210E1 plasmid pST0210E1, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

69. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897278 (Clostridium botulinum strain FWSKR40E1 plasmid pFWSKR40E1, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

70. spacer 1.7|1142639|30|NZ_CP013689|CRISPRCasFinder,CRT,PILER-CR matches to NZ_KT897279 (Clostridium botulinum strain SWKR38E2 plasmid pSWKR38E2, complete sequence) position: , mismatch: 9, identity: 0.7

ggttataacagccataaaaaaggactagct	CRISPR spacer
agttataacagctataaaaaatgatatata	Protospacer
.***********.******** **.  ..

71. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to KC954775 (UNVERIFIED: Cronobacter phage S13, complete genome) position: , mismatch: 9, identity: 0.7

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
tcggttcgttatcaaagtcaacaacaccat	Protospacer
. .******** ************.    *

72. spacer 1.14|1143100|30|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_028773 (Cronobacter phage S13, complete genome) position: , mismatch: 9, identity: 0.7

caagttcgttaacaaagtcaacaattgatt	CRISPR spacer
tcggttcgttatcaaagtcaacaacaccat	Protospacer
. .******** ************.    *

73. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MK373770 (Escherichia phage vB_EcoP_WFI101126, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

74. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to NC_018835 (Enterobacteria phage NJ01, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

75. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MN715356 (Escherichia phage vB_EcoP_EcoN5, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

76. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to JX867715 (Enterobacteria phage NJ01,complete sequence) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

77. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MN045231 (Escherichia phage Paul, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

78. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to MN148435 (Shigella phage SGF2, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

79. spacer 1.17|1143298|30|NZ_CP013689|CRISPRCasFinder,CRT matches to KP308307 (Escherichia phage 172-1, complete genome) position: , mismatch: 9, identity: 0.7

tcttcagtagtcaaacgatctttaccacca	CRISPR spacer
cattcagtagttaaacaatctttacagatt	Protospacer
. *********.****.******** . .

80. spacer 2.1|1345159|35|NZ_CP013689|CRT matches to MK448392 (Streptococcus satellite phage Javan27, complete genome) position: , mismatch: 9, identity: 0.743

tattccgaatgtttcaacgttgaaacatt---aattta	CRISPR spacer
-cccctaaatatttcaacgttgaaacatttggaatt--	Protospacer
  ..*..***.******************   ****

81. spacer 2.1|1345159|35|NZ_CP013689|CRT matches to MK448336 (Streptococcus satellite phage Javan15, complete genome) position: , mismatch: 9, identity: 0.743

tattccgaatgtttcaacgttgaaacatt---aattta	CRISPR spacer
-cccctaaatatttcaacgttgaaacatttggaatt--	Protospacer
  ..*..***.******************   ****

82. spacer 2.1|1345159|35|NZ_CP013689|CRT matches to MK448660 (Streptococcus satellite phage Javan9, complete genome) position: , mismatch: 9, identity: 0.743

tattccgaatgtttcaacgttgaaacatt---aattta	CRISPR spacer
-cccctaaatatttcaacgttgaaacatttggaatt--	Protospacer
  ..*..***.******************   ****

83. spacer 2.1|1345159|35|NZ_CP013689|CRT matches to MK448370 (Streptococcus satellite phage Javan22, complete genome) position: , mismatch: 9, identity: 0.743

tattccgaatgtttcaacgttgaaacatt---aattta	CRISPR spacer
-cccctaaatatttcaacgttgaaacatttggaatt--	Protospacer
  ..*..***.******************   ****

84. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to MK448600 (Streptococcus satellite phage Javan652, complete genome) position: , mismatch: 10, identity: 0.722

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
gaacgtgcacaaatttcgaaacgttacgaaaaatca	Protospacer
.*. .*   ********************* * **.

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

537318 : 547586

Staphylococcus_phage(50.0%)

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_058813749.1\|537318_538449_+	acetylornithine transaminase	A0A249XSK4	Mycobacterium_phage	2.9e-14	29.5
WP_058813750.1\|538543_539101_+	NAD(P)H-dependent oxidoreductase	NA	NA	NA	NA
WP_058813751.1\|539592_540645_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	2.2e-40	32.0
WP_058813752.1\|540647_541250_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.4e-31	39.3
WP_020916452.1\|541250_542429_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	1.7e-102	50.3
WP_020916453.1\|542449_542911_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	3.5e-43	56.7
WP_020916454.1\|542973_543540_-	energy-coupled thiamine transporter ThiT	NA	NA	NA	NA
WP_058813753.1\|543776_544742_-	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A096XT60	Enterococcus_phage	2.0e-128	70.2
WP_058813754.1\|545128_547288_-	class 1b ribonucleoside-diphosphate reductase subunit alpha	A8E2R1	Enterococcus_phage	3.0e-262	62.5
WP_058813755.1\|547358_547586_-	glutaredoxin-like protein NrdH	V5USF1	Enterococcus_phage	1.8e-11	42.5

DBSCAN-SWA_2

685915 : 696984

Streptococcus_phage(87.5%)

integrase

attL 689892:689907|attR 693125:693140

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058813824.1\|685915_687562_-	DNA primase	A0A1X9I717	Streptococcus_phage	5.7e-152	54.1
WP_058813825.1\|687574_688471_-	primase C-terminal domain-containing protein	A0A1X9I6L2	Streptococcus_phage	1.5e-85	55.6
WP_058813826.1\|688467_688743_-	MerR family transcriptional regulator	NA	NA	NA	NA
WP_173636482.1\|688848_689007_-	hypothetical protein	NA	NA	NA	NA
WP_058813827.1\|689017_689335_-	hypothetical protein	NA	NA	NA	NA
WP_058813828.1\|689346_689541_-	hypothetical protein	NA	NA	NA	NA
WP_058813829.1\|689537_689855_-	hypothetical protein	NA	NA	NA	NA
689892:689907	attL	NA	NA	NA	NA
WP_058813830.1\|690051_690672_-	Rha family transcriptional regulator	R9QNB1	Lactococcus_phage	3.8e-24	38.8
WP_058813831.1\|690691_690880_-	hypothetical protein	A0A1X9I5U7	Streptococcus_phage	1.2e-05	41.0
WP_058813832.1\|691044_691674_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_082661551.1\|691989_693081_+\|integrase	site-specific integrase	A0A1X9I5Y5	Streptococcus_phage	5.6e-79	46.9
WP_058813834.1\|693291_694806_+	LCP family protein	A0A1X9I5X1	Streptococcus_phage	2.8e-113	52.0
693125:693140	attR	NA	NA	NA	NA
WP_058813835.1\|694811_695543_+	tyrosine protein phosphatase	NA	NA	NA	NA
WP_058813836.1\|695551_696241_+	capsular biosynthesis protein CpsC	A0A1X9I5E1	Streptococcus_phage	1.8e-51	50.2
WP_058813837.1\|696261_696984_+	tyrosine-protein kinase	A0A1X9I5D6	Streptococcus_phage	1.6e-58	52.1

DBSCAN-SWA_3

807155 : 817584

Streptococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058813905.1\|807155_807842_+	helix-turn-helix transcriptional regulator	E8ZDN4	Streptococcus_phage	4.5e-58	49.6
WP_014334709.1\|807843_808047_+	hypothetical protein	D0R0A4	Streptococcus_phage	4.6e-11	47.7
WP_058813906.1\|808047_809463_+	Y-family DNA polymerase	M1Q231	Streptococcus_phage	4.8e-200	72.8
WP_021142262.1\|809464_809824_+	hypothetical protein	E4ZFJ1	Streptococcus_phage	4.0e-18	48.7
WP_058813907.1\|809844_810039_+	hypothetical protein	NA	NA	NA	NA
WP_058813908.1\|810229_814714_+	DEAD/DEAH box helicase	A0A2H4UTW8	Bodo_saltans_virus	1.2e-55	28.4
WP_058813909.1\|814754_816683_+	AbiA family abortive infection protein	NA	NA	NA	NA
WP_058813910.1\|816885_817584_+	GntR family transcriptional regulator	A0A2H5BLU5	Streptomyces_phage	2.0e-05	36.7

DBSCAN-SWA_4

986183 : 994299

Bacillus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058814003.1\|986183_987029_+	aldo/keto reductase	A0A2H4PQR8	Staphylococcus_phage	4.3e-55	41.4
WP_058814004.1\|987070_988297_-	HAMP domain-containing histidine kinase	W8CYF6	Bacillus_phage	1.1e-06	22.7
WP_020916921.1\|988305_988986_-	response regulator transcription factor	W8CYM9	Bacillus_phage	3.1e-19	30.2
WP_020916922.1\|988988_989624_-	GTP pyrophosphokinase family protein	NA	NA	NA	NA
WP_020916923.1\|989723_991496_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	1.6e-46	29.0
WP_020916924.1\|991485_993300_-	ABC transporter ATP-binding protein	F2Y302	Organic_Lake_phycodnavirus	3.8e-16	29.1
WP_043895256.1\|993303_993744_-	MarR family transcriptional regulator	NA	NA	NA	NA
WP_020916926.1\|993888_994299_-	peptide deformylase	E3SLL2	Synechococcus_phage	2.5e-08	41.7

DBSCAN-SWA_5

1345489 : 1403443

Streptococcus_phage(51.85%)

transposase,integrase,protease

attL 1342340:1342356|attR 1404629:1404645

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1342340:1342356	attL	NA	NA	NA	NA
WP_082661554.1\|1345489_1346581_+\|integrase	site-specific integrase	A0A1X9I5Y5	Streptococcus_phage	1.7e-80	48.1
WP_082661537.1\|1346761_1348420_-	hypothetical protein	NA	NA	NA	NA
WP_020917280.1\|1348501_1349134_-	SdpI family protein	NA	NA	NA	NA
WP_020917281.1\|1349120_1349402_-	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_020917282.1\|1349593_1350421_+	exodeoxyribonuclease III	M1PSC0	Streptococcus_phage	5.1e-125	79.5
WP_052317430.1\|1352700_1353564_-	hypothetical protein	NA	NA	NA	NA
WP_126402326.1\|1353795_1354026_-	hypothetical protein	NA	NA	NA	NA
WP_020917283.1\|1354237_1354594_-	arsenate reductase family protein	M1PLC0	Streptococcus_phage	2.5e-36	60.0
WP_058814170.1\|1354683_1355862_-	phosphoglycerate dehydrogenase	M1NSB9	Streptococcus_phage	1.8e-179	80.1
WP_020917285.1\|1355973_1357065_-	3-phosphoserine/phosphohydroxythreonine transaminase	M1Q1P2	Streptococcus_phage	7.8e-174	81.8
WP_020917286.1\|1357198_1357828_+	copper homeostasis protein CutC	NA	NA	NA	NA
WP_020915979.1\|1357962_1358949_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	1.6e-56	39.8
WP_020917290.1\|1359032_1359374_-	P-II family nitrogen regulator	NA	NA	NA	NA
WP_020917291.1\|1359454_1360690_-	ammonium transporter	NA	NA	NA	NA
WP_058814380.1\|1361039_1361909_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	1.5e-119	75.3
WP_058814171.1\|1361921_1362242_-	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	6.9e-30	62.3
WP_020917294.1\|1362234_1363035_-	signal-peptidase-like protein	NA	NA	NA	NA
WP_058814172.1\|1363031_1363907_-	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	2.2e-70	47.9
WP_058814173.1\|1363927_1364554_-	dTMP kinase	M1PSC7	Streptococcus_phage	4.6e-70	65.6
WP_020917297.1\|1364648_1365308_-	CBS domain-containing protein	M1NSC5	Streptococcus_phage	1.7e-70	63.8
WP_058814174.1\|1365444_1366155_-	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	7.0e-14	27.0
WP_043895098.1\|1366154_1366919_-	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	7.2e-17	24.8
WP_020917298.1\|1366918_1367872_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_020917299.1\|1367875_1368760_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_058814175.1\|1368817_1369996_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_020917301.1\|1370106_1370358_-	YlbG family protein	NA	NA	NA	NA
WP_020917302.1\|1370350_1370791_-	YlbF family regulator	NA	NA	NA	NA
WP_020917303.1\|1370894_1371485_-\|protease	ATP-dependent Clp protease proteolytic subunit	A0A223W000	Agrobacterium_phage	6.1e-56	56.2
WP_058814176.1\|1371561_1372455_-	DMT family transporter	NA	NA	NA	NA
WP_058814177.1\|1372568_1373438_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_020917306.1\|1373508_1374138_-	uracil phosphoribosyltransferase	NA	NA	NA	NA
WP_058814178.1\|1374286_1375450_-	pyridoxal phosphate-dependent aminotransferase	NA	NA	NA	NA
WP_058814179.1\|1375451_1376546_-	cystathionine gamma-synthase	A0A141ZJM2	Faustovirus	6.5e-11	28.1
WP_058814180.1\|1376766_1378401_-	polysaccharide biosynthesis protein	NA	NA	NA	NA
WP_058814181.1\|1378497_1379949_+	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L- lysine ligase	NA	NA	NA	NA
WP_020917311.1\|1380128_1380911_+	ABC transporter ATP-binding protein	A0A1V0SE00	Indivirus	9.1e-15	30.4
WP_058814182.1\|1380930_1381866_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_043895287.1\|1381898_1382921_+	iron ABC transporter permease	A0A2H4IY97	uncultured_Caudovirales_phage	8.5e-13	25.6
WP_043914608.1\|1382917_1383922_+	iron ABC transporter permease	A0A2H4IY97	uncultured_Caudovirales_phage	5.8e-14	27.6
WP_058814183.1\|1383951_1384605_-	DUF1803 domain-containing protein	NA	NA	NA	NA
WP_058814184.1\|1384597_1385113_-	UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase	NA	NA	NA	NA
WP_058814185.1\|1385213_1385945_+	peroxide stress protein YaaA	A0A1X9I5I0	Streptococcus_phage	6.2e-66	56.4
WP_058814186.1\|1385982_1386930_-	hypothetical protein	NA	NA	NA	NA
WP_020917320.1\|1388216_1389149_-	manganese-dependent inorganic pyrophosphatase	NA	NA	NA	NA
WP_020917321.1\|1389298_1389940_-	hypothetical protein	NA	NA	NA	NA
WP_020917322.1\|1390000_1390789_-	pyruvate formate lyase-activating protein	A0A2P0VNQ0	Tetraselmis_virus	2.0e-22	30.6
WP_020917323.1\|1390959_1392291_-	HlyC/CorC family transporter	NA	NA	NA	NA
WP_020917324.1\|1394586_1395369_+	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	2.6e-09	28.9
WP_020917325.1\|1395411_1395960_-	class I SAM-dependent methyltransferase	A0A2H4PQV0	Staphylococcus_phage	6.5e-36	41.4
WP_020917326.1\|1395956_1396895_-	TIGR01212 family radical SAM protein	A0A2H4PQV5	Staphylococcus_phage	9.5e-35	46.5
WP_020917327.1\|1396977_1397634_-	phosphatase PAP2 family protein	NA	NA	NA	NA
WP_020917328.1\|1397809_1398376_-	ECF transporter S component	NA	NA	NA	NA
WP_001067799.1\|1398764_1399445_-\|transposase	IS6-like element IS1216 family transposase	A0A1X9I6C6	Streptococcus_phage	1.7e-126	99.1
WP_002503927.1\|1399567_1399627_+	23S rRNA methylase leader peptide ErmCL	NA	NA	NA	NA
WP_002345002.1\|1399686_1400421_+	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(T)	E4ZFQ0	Streptococcus_phage	2.2e-63	52.5
WP_148638784.1\|1400793_1402145_-\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	1.3e-61	50.0
WP_058814188.1\|1402411_1402693_-	hypothetical protein	NA	NA	NA	NA
WP_001015311.1\|1402762_1403443_-\|transposase	IS6-like element IS1216 family transposase	A0A1X9I6C6	Streptococcus_phage	1.5e-127	99.6
1404629:1404645	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr_ID: NZ_CP013689.1|WP_058813829.1|689537_689855_-|hypothetical-protein

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Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NZ_CP013689.1|WP_058813829.1|689537_689855_-|hypothetical-protein

689537_689855_-

105 aa aa

685915-696984

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location	Mismatch
NZ_CP013689_2	Orphan	2.3\|1345290\|36\|NZ_CP013689\|CRT	1345290-1345325	36	691790-691825	0

1. spacer 2.3|1345290|36|NZ_CP013689|CRT matches to NZ_CP013689 position: 691790-691825, mismatch: 0

aagaattaccaaatttcgaaacgttacgaatattcg	CRISPR spacer
aagaattaccaaatttcgaaacgttacgaatattcg	Protospacer
************************************

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP013689

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CRISPR-Cas detection and classification

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Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

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