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_CP043869	Neptunomonas concharum strain JCM17730 chromosome, complete genome	1 crisprs	cas3,WYL,cas1,cas3f,cas8f,cas5f,cas7f,cas6f,DEDDh,csa3,DinG,PD-DExK	0	10	4	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP043869_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP043869_1

439247-440594

TypeI-F

I-F

Consensus_repeat	Method
GTTCACTGCCGCACAGGCAGCTTAGAAA	PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	CRT

22 spacers

cas6f,cas7f,cas5f,cas8f,cas3f,cas1,WYL

The CRISPR arrays of NZ_CP043869_1

>merge|NZ_CP043869|1|439247-440594|PILER-CR,CRISPRCasFinder,CRT
GTTCACTGCCGCACAGGCAGCTTAGAAAACTGACACCTATAACAATGCCGTCCCCATATGGTTCACTGCCGCACAGGCAGCTTAGAAAGTATGGCTGTCATATAAAACCGAGGAGATTAAGTTCACTGCCGCACAGGCAGCTTAGAAAGGTACAAGCACGACAACTGGGGGCGGTGGCTCGTTCACTGCCGCACAGGCAGCTTAGAAAGCCAGAGCAGGCCGGAAACCGGATAACAAAAAGTTCACTGCCGCACAGGCAGCTTAGAAAACCAATCAGAATGACCACTGATGCCACCGGGGGTTCACTGCCGCACAGGCAGCTTAGAAAAATATCAGCAACTACATCCACATCCTGAAATAGTTCACTGCCGCACAGGCAGCTTAGAAAGGGCTAATCGGCACGGGTGTAGATCGAGCTATGTTCACTGCCGCACAGGCAGCTTAGAAATTACATTGTTTTGACATCCAGAAATGTTCACAGTTCACTGCCGCACAGGCAGCTTAGAAAATGCAGATGGCTACGTTCTTCGGGCCTGATGAGTTCACTGCCGCACAGGCAGCTTAGAAAGATCCCTCAATCAGTGCCTGCGACTTTTTATAGTTCACTGCCGCACAGGCAGCTTAGAAATGAATAGTGTACAGCACATCAACATCAGACGGGTTCACTGCCGCACAGGCAGCTTAGAAATGACTGGCTAGTTGGCTTGCAACGCCAGCCAAGTTCACTGCCGCACAGGCAGCTTAGAAAACTTTATCAGCATCAAGCTTTGTTTTCTCAATGTTCACTGCCGCACAGGCAGCTTAGAAAGAACAAATTCGCGACTATTGCGGCATTGAAAGGTTCACTGCCGCACAGGCAGCTTAGAAAGAATAGTAATGAGTCGCCCTAGCGATTGGACAGTTCACTGCCGCACAGGCAGCTTAGAAAATATTCTGATTCTTCCCGTTTCTGTCAAATCTGTTCACTGCCGCACAGGCAGCTTAGAAAGATGGAGAGTTTTCAAACTCAATCGTCACAGGGTTCACTGCCGCACAGGCAGCTTAGAAATACACGACGCGCAGGGCAATGTCGTAGGATCTGTTCACTGCCGCACAGGCAGCTTAGAAACACATGACCGTTAGGTACCGCAATAGCGATACGTTCACTGCCGCACAGGCAGCTTAGAAAATCTCAAAAACATCATTGTTAACAATGCCGCTGTTCACTGCCGCACAGGCAGCTTAGAAATCTTGTCCGTGATCTTGACGCTTTCTAGCCCGGTTCACTGCCGCACAGGCAGCTTAGAAAATCATCCGGGCTGATATGTCGGCGTAGAGTTCGTTCACTGCCGCACAGGCAGCTTAGATA

>NZ_CP043869|1|1|439247-440594|PILER-CR
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTGACACCTATAACAATGCCGTCCCCATATG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GTATGGCTGTCATATAAAACCGAGGAGATTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGTACAAGCACGACAACTGGGGGCGGTGGCTC
GTTCACTGCCGCACAGGCAGCTTAGAAA	GCCAGAGCAGGCCGGAAACCGGATAACAAAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACCAATCAGAATGACCACTGATGCCACCGGGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	AATATCAGCAACTACATCCACATCCTGAAATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGGCTAATCGGCACGGGTGTAGATCGAGCTAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TTACATTGTTTTGACATCCAGAAATGTTCACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGCAGATGGCTACGTTCTTCGGGCCTGATGA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATCCCTCAATCAGTGCCTGCGACTTTTTATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGAATAGTGTACAGCACATCAACATCAGACGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGACTGGCTAGTTGGCTTGCAACGCCAGCCAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTTTATCAGCATCAAGCTTTGTTTTCTCAAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAACAAATTCGCGACTATTGCGGCATTGAAAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAATAGTAATGAGTCGCCCTAGCGATTGGACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATATTCTGATTCTTCCCGTTTCTGTCAAATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATGGAGAGTTTTCAAACTCAATCGTCACAGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TACACGACGCGCAGGGCAATGTCGTAGGATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CACATGACCGTTAGGTACCGCAATAGCGATAC
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCTCAAAAACATCATTGTTAACAATGCCGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TCTTGTCCGTGATCTTGACGCTTTCTAGCCCG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCATCCGGGCTGATATGTCGGCGTAGAGTTC
GTTCACTGCCGCACAGGCAGCTTAGATA

>NZ_CP043869|1|1|439247-440594|CRISPRCasFinder
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTGACACCTATAACAATGCCGTCCCCATATG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GTATGGCTGTCATATAAAACCGAGGAGATTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGTACAAGCACGACAACTGGGGGCGGTGGCTC
GTTCACTGCCGCACAGGCAGCTTAGAAA	GCCAGAGCAGGCCGGAAACCGGATAACAAAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACCAATCAGAATGACCACTGATGCCACCGGGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	AATATCAGCAACTACATCCACATCCTGAAATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGGCTAATCGGCACGGGTGTAGATCGAGCTAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TTACATTGTTTTGACATCCAGAAATGTTCACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGCAGATGGCTACGTTCTTCGGGCCTGATGA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATCCCTCAATCAGTGCCTGCGACTTTTTATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGAATAGTGTACAGCACATCAACATCAGACGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGACTGGCTAGTTGGCTTGCAACGCCAGCCAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTTTATCAGCATCAAGCTTTGTTTTCTCAAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAACAAATTCGCGACTATTGCGGCATTGAAAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAATAGTAATGAGTCGCCCTAGCGATTGGACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATATTCTGATTCTTCCCGTTTCTGTCAAATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATGGAGAGTTTTCAAACTCAATCGTCACAGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TACACGACGCGCAGGGCAATGTCGTAGGATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CACATGACCGTTAGGTACCGCAATAGCGATAC
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCTCAAAAACATCATTGTTAACAATGCCGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TCTTGTCCGTGATCTTGACGCTTTCTAGCCCG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCATCCGGGCTGATATGTCGGCGTAGAGTTC
GTTCACTGCCGCACAGGCAGCTTAGATA

>NZ_CP043869|1|1|439247-440594|CRT
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTGACACCTATAACAATGCCGTCCCCATATG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GTATGGCTGTCATATAAAACCGAGGAGATTAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGTACAAGCACGACAACTGGGGGCGGTGGCTC
GTTCACTGCCGCACAGGCAGCTTAGAAA	GCCAGAGCAGGCCGGAAACCGGATAACAAAAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACCAATCAGAATGACCACTGATGCCACCGGGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	AATATCAGCAACTACATCCACATCCTGAAATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GGGCTAATCGGCACGGGTGTAGATCGAGCTAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TTACATTGTTTTGACATCCAGAAATGTTCACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATGCAGATGGCTACGTTCTTCGGGCCTGATGA
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATCCCTCAATCAGTGCCTGCGACTTTTTATA
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGAATAGTGTACAGCACATCAACATCAGACGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TGACTGGCTAGTTGGCTTGCAACGCCAGCCAA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ACTTTATCAGCATCAAGCTTTGTTTTCTCAAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAACAAATTCGCGACTATTGCGGCATTGAAAG
GTTCACTGCCGCACAGGCAGCTTAGAAA	GAATAGTAATGAGTCGCCCTAGCGATTGGACA
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATATTCTGATTCTTCCCGTTTCTGTCAAATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	GATGGAGAGTTTTCAAACTCAATCGTCACAGG
GTTCACTGCCGCACAGGCAGCTTAGAAA	TACACGACGCGCAGGGCAATGTCGTAGGATCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CACATGACCGTTAGGTACCGCAATAGCGATAC
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCTCAAAAACATCATTGTTAACAATGCCGCT
GTTCACTGCCGCACAGGCAGCTTAGAAA	TCTTGTCCGTGATCTTGACGCTTTCTAGCCCG
GTTCACTGCCGCACAGGCAGCTTAGAAA	ATCATCCGGGCTGATATGTCGGCGTAGAGTTC
GTTCACTGCCGCACAGGCAGCTTAGATA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP043869.1\|WP_138986291.1\|445142_445724_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|239905
NZ_CP043869.1\|WP_138986282.1\|437413_438442_+\|type-I-F-CRISPR-associated-protein-Csy3	cas7f	cd09677_cas7f_CAS-I-F	gnl\|CDD\|378222
NZ_CP043869.1\|WP_138986279.1\|431833_435223_+\|type-I-F-CRISPR-associated-helicase-Cas3	cas3f	cd09673_cas3f_CAS-I-F	gnl\|CDD\|274201
NZ_CP043869.1\|WP_138986274.1\|427408_428248_+\|urea-ABC-transporter-ATP-binding-protein-UrtD	unknown	unknown	gnl\|CDD\|274568
NZ_CP043869.1\|WP_138986278.1\|430859_431837_+\|type-I-F-CRISPR-associated-endonuclease-Cas1	cas1	cd09718_cas1_CAS-I-F	gnl\|CDD\|132676
NZ_CP043869.1\|WP_138986293.1\|447455_448412_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293840
NZ_CP043869.1\|WP_138986287.1\|443142_443610_+\|urease-accessory-protein-UreE	unknown	unknown	gnl\|CDD\|237322
NZ_CP043869.1\|WP_138986277.1\|429860_430709_+\|WYL-domain-containing-protein	WYL	COG2378_WYL_CAS-I:CAS-III	gnl\|CDD\|225253
NZ_CP043869.1\|WP_138986289.1\|443834_444500_+\|urease-accessory-protein-UreF	unknown	unknown	gnl\|CDD\|223900
NZ_CP043869.1\|WP_138986276.1\|428942_429791_+\|urease-accessory-protein-UreD	unknown	unknown	gnl\|CDD\|223899
NZ_CP043869.1\|WP_138986285.1\|441118_441430_+\|urease-subunit-beta	unknown	unknown	gnl\|CDD\|237303
NZ_CP043869.1\|WP_138986283.1\|438451_439090_+\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	cas6f	pfam09618_cas6f_CAS-I-F	gnl\|CDD\|378224
NZ_CP043869.1\|WP_138986284.1\|440806_441109_+\|urease-subunit-gamma	unknown	unknown	gnl\|CDD\|183913
NZ_CP043869.1\|WP_138986281.1\|436514_437399_+\|type-I-F-CRISPR-associated-protein-Csy2	cas5f	pfam09614_cas5f_CAS-I-F	gnl\|CDD\|378221
NZ_CP043869.1\|WP_138986275.1\|428250_428946_+\|urea-ABC-transporter-ATP-binding-subunit-UrtE	unknown	unknown	gnl\|CDD\|274567
NZ_CP043869.1\|WP_138986292.1\|445924_447409_+\|DUF853-family-protein	unknown	unknown	gnl\|CDD\|283518
NZ_CP043869.1\|WP_138986290.1\|444523_445168_+\|urease-accessory-protein-UreG	unknown	unknown	gnl\|CDD\|349776
NZ_CP043869.1\|WP_138986286.1\|441431_443135_+\|urease-subunit-alpha	unknown	unknown	gnl\|CDD\|237305
NZ_CP043869.1\|WP_170221704.1\|435222_436518_+\|type-I-F-CRISPR-associated-protein-Csy1	cas8f	pfam09611_cas8f_CAS-I-F	gnl\|CDD\|378220
NZ_CP043869.1\|WP_138986288.1\|443627_443828_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NZ_CP043869.1\|WP_138986291.1\|445142_445724_-\|hypothetical-protein	gnl\|CDD\|239905	cd04458, CSP_CDS, Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.	0.000102542
NZ_CP043869.1\|WP_138986282.1\|437413_438442_+\|type-I-F-CRISPR-associated-protein-Csy3	gnl\|CDD\|378222	pfam09615, Cas_Csy3, CRISPR-associated protein (Cas_Csy3). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2463 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy3, for CRISPR/Cas Subtype Ypest protein 3.	0
NZ_CP043869.1\|WP_138986279.1\|431833_435223_+\|type-I-F-CRISPR-associated-helicase-Cas3	gnl\|CDD\|274201	TIGR02562, conserved_hypothetical_protein, CRISPR-associated helicase Cas3, subtype I-F/YPEST. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.	0
NZ_CP043869.1\|WP_138986274.1\|427408_428248_+\|urea-ABC-transporter-ATP-binding-protein-UrtD	gnl\|CDD\|274568	TIGR03411, urea_trans_UrtD, urea ABC transporter, ATP-binding protein UrtD. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. [Transport and binding proteins, Amino acids, peptides and amines].	2.88406e-158
NZ_CP043869.1\|WP_138986278.1\|430859_431837_+\|type-I-F-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|132676	TIGR03637, cas1_YPEST, CRISPR-associated endonuclease Cas1, subtype I-F/YPEST. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is 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 protein particular to the YPEST subtype of CRISPR/Cas system.	3.30295e-171
NZ_CP043869.1\|WP_138986293.1\|447455_448412_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293840	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain. Members of the MBL-fold metallohydrolase superfamily are mainly hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) for which this fold was named perform only a small fraction of the activities included in this superfamily.Activities carried out by superfamily members include class B beta-lactamases, hydroxyacylglutathione hydrolases, AHL (acyl homoserine lactone) lactonases, persulfide dioxygenases, flavodiiron proteins, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J and ribonuclease Z, cyclic nucleotide phosphodiesterases, insecticide hydrolases, and proteins required for natural transformation competence. Classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, however the diversity of biological roles is reflected in variations in the active site metallo-chemistry.	8.89191e-67
NZ_CP043869.1\|WP_138986287.1\|443142_443610_+\|urease-accessory-protein-UreE	gnl\|CDD\|237322	PRK13261, ureE, urease accessory protein UreE; Provisional.	1.87868e-53
NZ_CP043869.1\|WP_138986277.1\|429860_430709_+\|WYL-domain-containing-protein	gnl\|CDD\|225253	COG2378, COG2378, Predicted transcriptional regulator [Transcription].	3.69584e-13
NZ_CP043869.1\|WP_138986289.1\|443834_444500_+\|urease-accessory-protein-UreF	gnl\|CDD\|223900	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones].	1.29075e-66
NZ_CP043869.1\|WP_138986276.1\|428942_429791_+\|urease-accessory-protein-UreD	gnl\|CDD\|223899	COG0829, UreH, Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones].	4.99895e-75
NZ_CP043869.1\|WP_138986285.1\|441118_441430_+\|urease-subunit-beta	gnl\|CDD\|237303	PRK13203, ureB, urease subunit beta; Reviewed.	3.98363e-71
NZ_CP043869.1\|WP_138986283.1\|438451_439090_+\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	gnl\|CDD\|378224	pfam09618, Cas_Csy4, CRISPR-associated protein (Cas_Csy4). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This protein family, typified by YPO2462 of Yersinia pestis, is a CRISPR-associated (Cas) family strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy4, for CRISPR/Cas Subtype Ypest protein 4.	1.29787e-62
NZ_CP043869.1\|WP_138986284.1\|440806_441109_+\|urease-subunit-gamma	gnl\|CDD\|183913	PRK13241, ureA, urease subunit gamma; Provisional.	1.39658e-69
NZ_CP043869.1\|WP_138986281.1\|436514_437399_+\|type-I-F-CRISPR-associated-protein-Csy2	gnl\|CDD\|378221	pfam09614, Cas_Csy2, CRISPR-associated protein (Cas_Csy2). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2464 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy2, for CRISPR/Cas Subtype Ypest protein 2.	3.08174e-152
NZ_CP043869.1\|WP_138986275.1\|428250_428946_+\|urea-ABC-transporter-ATP-binding-subunit-UrtE	gnl\|CDD\|274567	TIGR03410, urea_trans_UrtE, urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. [Transport and binding proteins, Amino acids, peptides and amines].	5.08232e-131
NZ_CP043869.1\|WP_138986292.1\|445924_447409_+\|DUF853-family-protein	gnl\|CDD\|283518	pfam05872, DUF853, Bacterial protein of unknown function (DUF853). This family consists of several bacterial proteins of unknown function. BMEI1370 is thought to be an ATPase.	0
NZ_CP043869.1\|WP_138986290.1\|444523_445168_+\|urease-accessory-protein-UreG	gnl\|CDD\|349776	cd05540, UreG, urease accessory protein UreG. UreG is one of the four accessory proteins of urease. Urease is an enzyme which catalyzes the decomposition of urea to form ammonia and carbon dioxide. Bacterial urease is a trimer of three subunits which are encoded by genes ureA, ureB, and ureC. Up to four accessory proteins (ureD, ureE, ureF, and ureG) are required for urease catalytical function. UreG may play an important role in nickel incorporation of the urease metallocenter. UreG is a member of the Fer4_NifH superfamily which contains an ATP-binding domain. Proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.	3.80849e-129
NZ_CP043869.1\|WP_138986286.1\|441431_443135_+\|urease-subunit-alpha	gnl\|CDD\|237305	PRK13207, ureC, urease subunit alpha; Reviewed.	0
NZ_CP043869.1\|WP_170221704.1\|435222_436518_+\|type-I-F-CRISPR-associated-protein-Csy1	gnl\|CDD\|378220	pfam09611, Cas_Csy1, CRISPR-associated protein (Cas_Csy1). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2465 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy1, for CRISPR/Cas Subtype Ypest protein 1.	2.24961e-101

>NZ_CP043869.1|WP_138986283.1|438451_439090_+|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4
MNYYQEITLLPDAEISLGFLWQSVFQQVHIALVEHKVGANQSAVAVGFPDYRQAKFPLGSKLRLFAQEQMTLEKLDIGQWLTRLEDYVHIKGIKAVPSDVSYVSFFRKQVKSPERVERDMQNKAVLWAEKSGKPLDECLIELEKSKPETLCRLPFVYLHSQQTKQRSPDKSSKFPLFIEMQPQSEEHAGQFDCYGLSTKTNGRQVVATVPYF
>NZ_CP043869.1|WP_138986282.1|437413_438442_+|type-I-F-CRISPR-associated-protein-Csy3
MAKNNDTASVLAFEKKLVPSDGYLFGTNWDTKEQVTPLALQEKSVRGTVSHRLKKSGEKDIMKLDMDIASPNPQRVDACALGQDQDTLKLHFTLKVLGDLSKPSACNNALFKQSYSAAVEQYIAKYGCLELAKRYATNLANARFLWRNRVGAEEIEVQVKALNKGAEQAWIFDAKKFSTRDFDHNDSQVNILAERIANVLASKSEHLMLQIDCYAKVGKAQEVYPSEELVMDKGNSKSKKSKILYAVNDHAAMHSQKIGNALRSIDTWYPEYALEEQSAGAIAVEVYGAVTNLGKAFRTPKKNDFYTYFDKWARGEALPREEDEHYVVAVLVRGGVFGESDK
>NZ_CP043869.1|WP_138986281.1|436514_437399_+|type-I-F-CRISPR-associated-protein-Csy2
MNLLILPHIKIHNANALSSPFTIGFPAMTAWLGFTHALERKLNSKGFPDLMLHSVAVVSHHCDVQTYKGEGDFVHSIIGTGNPLDKDGSRSAFIEEARCHLDVSLVIEWSGNDEEVQNASFVEQLQSVIAGMKVAGGDVLSLYKPIIDSVIDSQDRSRLIRTLMPGYVLIERRDLMIEAMQEGADALDALLSYLTVNHSCEQLPDESIVWRSQRKARGWIVPIATGFQGISPLGEAKNQRDPTVPHRFAESVVTLGEFIMAHKVKHLDDMLWQYAPEVENDLYLCQQVNANNSY
>NZ_CP043869.1|WP_170221704.1|435222_436518_+|type-I-F-CRISPR-associated-protein-Csy1
MEGNTMLDPAIEAFFTERKEAWLEKNLKGELDESQVIKKKQECEQRFSLKNWIPNAAQRICSRALSTHPSKFSHPSTGVGKTNKKDGSFVSPILFEGTYRIDGYLRSGNVRFELIDSVGNAGELDVEDFLRIVISDGMTVIQHIENETSLGKEILEVDGCSYKELREGLLVIKSSNEPISTNSKIKQVYFPIADEKYHLLSLLTHSGHLFEQRKRIEDLRFSEQVTVARECRKNDKYHALGYSEIFGITTIGYGGTKPANISVLNNQNAGKAHLLASVPPELRQRDIRLPRTDFFKECFTAWQAKEILEALHRLYITDHNNIDIRQGRDYRIQQYVDLVIEKMWQVRLFLAEHQGELSSELPLEQKIWLYPDRELQREQENEWLNKITRHIARSLINHYSRNKFISTPVMLADQELLAIEDIVNVNKESLR
>NZ_CP043869.1|WP_138986279.1|431833_435223_+|type-I-F-CRISPR-associated-helicase-Cas3
MMVIFVSQCEKNALKKTRRVLDAFANRIGDNTWQTLITEEGLLTVKKMLRKTASRSTAVSCHWIRSRSRSQFLWVVGNKKKFNVEGVVPVNSTEKDLLNSEYESDWKYLPLIKALAAMAALLHDWGKASLLFQEKLNPDIKTKHKGDPLRHEWISCLLFHHFVARQIRGNDDQAWLNSLISEGVDESSFSSNTLEREKPFSELPSGAALIAWLIVSHHRLPLPKDEKLCREQRDKDNADLASLLARITQAWGYENRSEDYDTLLPKCFAFPLGLLSNSNVWLTELQNRAKDLLHYLPLLELAVSDGSWRVILHHARLCLMLGDHYYSSQANDPQWQISSKLYANTDPKTKALKQKLDEHLVNVAKVTVNTVKLLPFFESEPLKSTDIAELAPKASTSKSFRWQDKAVRKILGWREHTEDKSQGYFVVNMASTGCGKTMANAKIMQALSDDGESLRFVLALGLRTLTLQTGDEYKKRLKLQDSDLAVLIGSKAIYELHQSGQQVDKDEVELTQEEVGSESIESLQEETDELHWQGVLPEEELTTILSTDKGKCQKYRALLYAPVLACTIDHIMAATETKRGGRYILPCLRLMSSDLVIDEIDDFTGDDLIAIGRLIHLVGMLGRKVMISSATIPPDLALGLFNAYRQGWAIFAASRDRVASINCVYVDEFATNTDLVGCDDNDLDAYQLFGQNFITKRVDKLKQQIARRKAEIIPCIKQPDAPVNEQYFGYVKQAILDKHQQHFTLDPQSQTHVSFGVVRVANIQPCVELTKYLLSCDWPADIEVRCMAYHSQQVLLLRHEQEKHLDQVLERKESIGELPVAFANSIIRQHLNSSCKKNLLFILVATPVEEVGRDHDFDWAVIEPSSFRSIIQMSGRVRRHRDGEVTSPNIGLLQYNYRGFKGEEERVFNRPGYEADQTTQLQSHDLKQLVDEQALLQSVNAVARIQKHSMLEPHKNLVDLEHFATAKTLGTDQIGQLKKGTVSRQDRYSRNRRDSQPKSYWCDHLHGHIHGYWWLTALPQYFKRFRKSEPSVQLYLIKKARSIEFCLRGDQGGFCPVERTLNIGHQPLELEQQQKLWLQRDYSELVGLYSPSLEQESVTSMRYGEISFIHRDGNTQYSYNDQLGLVKVK
>NZ_CP043869.1|WP_138986278.1|430859_431837_+|type-I-F-CRISPR-associated-endonuclease-Cas1
MEQFSPSDMKTILHSKRANMYYLEYCRVMQKDGRVLYLTEASKENQYFNIPIANTTVIMLGTGTSITQAAMRMLSQAGVLVGFCGGGGTPLHMACEVEWLTPQSEYRPTEYLHGWIKFWFEDDKRLQAAQQFQTARIDYLERVWSRDKDLKGEGFSIKDALLVAPFETFYQRTEAATKQSDLLLTEAQLTKVLYKYAANNVDISDFTRQHQSTDKANDFLNHGNYLAYGLAACCLWVLGIPHGFAVMHGKTRRGALVFDVADLIKDAIVLPWAFICAKENATEQEFRQQILQKFTDHKALDFMFDTVKAIALQDYTAQQIEEHGL
>NZ_CP043869.1|WP_138986277.1|429860_430709_+|WYL-domain-containing-protein
MDAVSEKLRYIDNERYRVIELFARWEGRINTTHLQNIFGVGRQKASDIIKSYSERYPNNLIYNPSIKGHQPTEHFQAYHAGNTFDEYHHILAHSGYPEYLSFMQTGFSLIEAPLRNISPALVQPIIRAIREKLRLDIGYASVTTPEYESRIISPHCLVFDGIRWHVRAWCEKNQQFRDFVLSRFSGEVEFEGPASYTAEDDERWNTWLDIIIEPDPRLPPAKRRIIAMDYQMDNNQRVIPVRAALVLYVWQRLRLDHYAPDPEAQQITITPDSHKAIKPYLP
>NZ_CP043869.1|WP_138986276.1|428942_429791_+|urease-accessory-protein-UreD
MNTDTKPNIEASQGWKAALHLGYEPRQNITKLVRRTQRGPLAVQRSLYPEGATCHTYLLHPPGGVVGGDQLDIRVQTSEGAHAVITTPGATKFYRSEGKQAYQRQTLTVESGSTLEWLPQENICFPGAHAQITSDIYLALGSRYLGWEIQCLGRPANGETFEMGLINSASRVWMGKKLVLVDQLRNQGSELIRSASGLRGHAMNATLIAGTLGEAHLEGVRACLGEIDTDCQFGVTWMDDLLIVRVLGNNTEAIQQLLIPARDYLREHWLNQPAHAPRIWAT
>NZ_CP043869.1|WP_138986275.1|428250_428946_+|urea-ABC-transporter-ATP-binding-subunit-UrtE
MLKIEGLNQFYGQSHTLWDVDMHIPKGKCTVLMGRNGVGKTTLLQCIMGHHPVKSGRITLAGEELLNKSVEDRPRLGIGYVPQGRQIFPLLTVEENLQIGLPVRARGDRKIPGYIFELFPVLHEMLQRRGGDLSGGQQQQLAIGRALVVDPQLLMLDEPTEGIQPNVVAEIGDIIRKLNREMGLTVLLVEQKLPFARKVGDQFCILDRGRPVAEGSMDTLSDALVKEYLTV
>NZ_CP043869.1|WP_138986274.1|427408_428248_+|urea-ABC-transporter-ATP-binding-protein-UrtD
MSILNTLEQVADRHHVFPFMMPQQAPALDVSHNVLLYLEGISVSFDGFKAINDLNLYIDDGELRCIIGPNGAGKTTMMDIITGKTTPDSGSAWFGQTINLLDLDEPAIAQAGIGRKFQKPTVFEALTVWENLELAMADDRAVWSILHARLNSEQQDLLHETLILIGLKSHAKMQAGKLSHGQKQWLEIGMLLMQKPRLLLVDEPVAGMTHQEMDRTAELLTSLAGRHSVVVVEHDMDFVRSLAGKDRTVSVLHQGSVLSEGSMDKVQNDPRVIEVYLGE
>NZ_CP043869.1|WP_138986284.1|440806_441109_+|urease-subunit-gamma
MELTPREKDKLLLFTAALLAERRMARGLKLNYPESVALISAAILEGARDGRTVSELMDYGRTLLSADDVMPGVAEMIHDVQVEATFPDGTKLVTVHDPIV
>NZ_CP043869.1|WP_138986285.1|441118_441430_+|urease-subunit-beta
MIPGEMITQQGDIEINQGRVTCSLSVANTGDRPIQVGSHYHFYEANNALVFDREKALGFRLNIPAGTAVRFEPGQSRTVELVAYAGDRVVFGFQGKIMGALGD
>NZ_CP043869.1|WP_138986286.1|441431_443135_+|urease-subunit-alpha
MATISRRAYAEMFGPTMGDRVRLADTSLFLKVEKDLTVYGDEVKFGGGKVIRDGQGQSQRPSAETADLVITNALIIDHWGIIKADIGIKAGRIAAIGKAGNPDVQPGIDIVIGPGTEVLAGEGSIVTAGGIDAHIHFICPQQIDDALMSGVTTMIGGGTGPATGTNATTCTPGPWNIHRMLQAVDNLPMNIGFLGKGNASQPDALREQVAAGVMGLKLHEDWGTTPASIDCCLSVAEEMDVQVAIHTDTLNESGFVEDTLAAIGDRVIHTYHTEGAGGGHAPDIIKAAGYSNVLPSSTNPTRPYTVNTVDEHLDMLMVCHHLDPSIAEDVAFAESRIRRETIAAEDILHDLGAFSMIASDSQAMGRVGEVVIRTWQTADKMKQQRGPLPEDSAEHDNFRIKRYIAKYTINPALAHGIAHEVGSIEVGKLADLVLWKPAFFGVKPSAILKGGMIAAAPMGDPNASIPTPQPVHYRPMFGAMGAACHNTSMLFLSQAAIVNGVPERLGLQSLIGEVKGCRTVKKSDMVHNDYQPDISVDSQTYEVKADGQLLTCEPATCLPMAQRYFLF
>NZ_CP043869.1|WP_138986287.1|443142_443610_+|urease-accessory-protein-UreE
MIQLTHVRDVVTYYQATLSLPVDKRIKSRLKVVLDNGQEAGLFLPRGIMLRDGDQLQSDTGYVVQICAAPEQVSSVTCQSRHLLMRIAYHLGNRHVPLQIEADFIRYQHDHVLDDMVRGLGGEVTSELAPFEPEAGAYGGGSADGHSHSHHHHEH
>NZ_CP043869.1|WP_138986288.1|443627_443828_+|hypothetical-protein
MKRVTAISFGALSSAPVLAHDNETTSSMMATLVHQLTAPDHLLMTAVVVAGIAFMPSVIRRIRNKK
>NZ_CP043869.1|WP_138986289.1|443834_444500_+|urease-accessory-protein-UreF
MLANVRLYQLISPSLPIGGFTYSQGLEWAIEAGWVTTAEDLEAWLASVMAHSIATLELPVLRRLYLALQQQDSESFLYWNQWLSASRETAELRKEERQRGQALATLLPNLGVPVMPPYDEAVRSTQVAGFALAASYFDIPLREACGGYLWGWLENMVMAGVKLVPLGQTAGQQLMLRLGEQIPAMVDAALMVADEDVGSSTPALAIASSQHETQYTRLFRS
>NZ_CP043869.1|WP_138986290.1|444523_445168_+|urease-accessory-protein-UreG
MSDSYKSPLRIGVGGPVGSGKTALLEALCKAMRDDYNLAVVTNDIYTQEDAKILTQAQALDADRIIGVETGGCPHTAIREDASMNLAAVEELARRHKTLDLVFVESGGDNLSATFSPELADLTIYVIDVAEGEKIPRKGGPGITRSDLLIINKIDLAPYVGADLNVMDQDTKRMRPTSPYVFTNLKEGKGLPDIIRFIKEQGMLDVVKASEAPS
>NZ_CP043869.1|WP_138986291.1|445142_445724_-|hypothetical-protein
MATIKGRLKDWNEEQGIGIITVADSKDDILFELKDFIANHQPHLGEMLICSLRPTLGGRLQAFRVQPTGLVMGDFRFNRLQTLDWLLAGLPFIFSLLAAIFSLIPLLAYLVFSAASMMTIYQDHNKKTGRFSVPDWQLLVAELLCGWPGSLVAQVALNHHCPTREYQLLATPIRYLHMVIWLITITSWVLLTL
>NZ_CP043869.1|WP_138986292.1|445924_447409_+|DUF853-family-protein
METGILIGGCETGKVFLDPRYANRHGLIAGATGTGKTVTLQCLAEGFSDMGVPVFMADVKGDLSGLSQTGNPHPKVDERVEKIGIEGFEQRGFPVAFWDVFGEQGTPVRSTISEMGPQLLSRLLDLNETQESILTLVFEFADDEGLLLVDLNDLRTSLEFIADQGKEISSSLNVSKASVNAILRRLLMLEREGGDLFFGEPALQLEDLMQVNRDGRGVINILASDKLILSPRVYSTFLLWLLSELFENLPEVGDPEKPEMVFFFDEAHLLFNNASKALIEKVEQVVRLIRSKGVGVYFITQSPSDLPDNVLGQLGNRVQHALRAFTPRDQKAVKVAAQTFRPNPNLDTFDAITNMGVGEALVSVLQKGGVPTVVERTLVRPPSSRMGPATDAERKAVIDGSRMHRLYADAVDPHSAHEVLLERTAARLKAAEEAAEHEAQEKEQRKASRSSGRSSNRQSVTEALMKSVVRSVGSSLGRSVGKSLLRGILGSLLK
>NZ_CP043869.1|WP_138986293.1|447455_448412_-|MBL-fold-metallo-hydrolase
MVFARSLGAALLLSYATITCADIIPDRYPESLLYDKPIQVADNVWSAIGQTQYYSYENAGHNNNLSFVIGDEAVLVVNGSSSYLLAKALHDEIKKLTNKPVRYVVDENGQSHAVVGNNYWKEQGATLIAHSEAAEEVESHGATGLKNLQGILKERAEGSALVPIDQTFDDKMTLDLGGLTAELIHFGPAHSPGDISVYIPERNVLIAGDIAFHIRLLPIFPDTNTAEWLDTWHNHFSDFAQDKIIIPGHGGPTDFATVDQWTRGYLEYLRGKVAELLEEGGTLEDAYSIDQSPYTHLETFDELAAKNAGRVFEAMEFE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP043869_1	1.8\|439695\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439695-439726	32	NZ_CP043831	Bacillus sp. BS98 plasmid unnamed1	207515-207546	6	0.812
NZ_CP043869_1	1.8\|439695\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439695-439726	32	NC_018689	Bacillus thuringiensis MC28 plasmid pMC429, complete sequence	283670-283701	6	0.812
NZ_CP043869_1	1.3\|439395\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439395-439426	32	NZ_CP019603	Croceicoccus marinus strain E4A9 plasmid pCME4A9I, complete sequence	550027-550058	7	0.781
NZ_CP043869_1	1.7\|439635\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439635-439666	32	NZ_CP031755	Rhodobacter sphaeroides strain EBL0706 plasmid p.D, complete sequence	27784-27815	7	0.781
NZ_CP043869_1	1.13\|439995\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439995-440026	32	NZ_CP019279	Escherichia coli strain 13P477T plasmid p13P477T-6, complete sequence	1068-1099	7	0.781
NZ_CP043869_1	1.18\|440295\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	440295-440326	32	NZ_CP040763	Paracoccus sp. 2251 plasmid unnamed4, complete sequence	82805-82836	8	0.75
NZ_CP043869_1	1.20\|440415\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	440415-440446	32	EU350361	Abalone shriveling syndrome-associated virus, complete genome	17447-17478	8	0.75
NZ_CP043869_1	1.21\|440475\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	440475-440506	32	NZ_CP049029	Fluviibacterium aquatile strain SC52 plasmid pSC52_1, complete sequence	142975-143006	8	0.75
NZ_CP043869_1	1.3\|439395\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439395-439426	32	NZ_CP029209	Nitratireductor sp. OM-1 plasmid pOM-1, complete sequence	671878-671909	9	0.719
NZ_CP043869_1	1.7\|439635\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439635-439666	32	NC_011986	Agrobacterium vitis S4 plasmid pAtS4a, complete sequence	65536-65567	9	0.719
NZ_CP043869_1	1.11\|439875\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439875-439906	32	MK016493	Brevibacterium phage Cantare, complete genome	78256-78287	9	0.719
NZ_CP043869_1	1.13\|439995\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439995-440026	32	MT774394	CrAssphage cr271_1, complete genome	3836-3867	9	0.719
NZ_CP043869_1	1.20\|440415\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	440415-440446	32	MK310183	UNVERIFIED: Phage NC-B, complete genome	66722-66753	9	0.719
NZ_CP043869_1	1.6\|439575\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439575-439606	32	NC_015065	Granulicella tundricola MP5ACTX9 plasmid pACIX902, complete sequence	77715-77746	10	0.688
NZ_CP043869_1	1.7\|439635\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439635-439666	32	NZ_CP015221	Rhodococcus sp. PBTS 2 plasmid unnamed1, complete sequence	20342-20373	10	0.688
NZ_CP043869_1	1.13\|439995\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	439995-440026	32	MH511048	Podoviridae sp. isolate ctbh1, complete genome	33130-33161	11	0.656
NZ_CP043869_1	1.22\|440535\|32\|NZ_CP043869\|PILER-CR,CRISPRCasFinder,CRT	440535-440566	32	NZ_CP025613	Niveispirillum cyanobacteriorum strain TH16 plasmid unnamed1, complete sequence	543633-543664	11	0.656

1. spacer 1.8|439695|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP043831 (Bacillus sp. BS98 plasmid unnamed1) position: , mismatch: 6, identity: 0.812

ttaca-ttgttttgacatccagaaatgttcaca	CRISPR spacer
-aacatttgttgtgacatccagaaatcttcaac	Protospacer
  *** ***** ************** ****

2. spacer 1.8|439695|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NC_018689 (Bacillus thuringiensis MC28 plasmid pMC429, complete sequence) position: , mismatch: 6, identity: 0.812

ttaca-ttgttttgacatccagaaatgttcaca	CRISPR spacer
-aacatttgttgtgacatccagaaatcttcaac	Protospacer
  *** ***** ************** ****

3. spacer 1.3|439395|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP019603 (Croceicoccus marinus strain E4A9 plasmid pCME4A9I, complete sequence) position: , mismatch: 7, identity: 0.781

ggtacaagcacgacaactgggggcggtggctc	CRISPR spacer
gctacaagctcgacaactgggtgcgcgtgctg	Protospacer
* ******* *********** ***   ***

4. spacer 1.7|439635|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP031755 (Rhodobacter sphaeroides strain EBL0706 plasmid p.D, complete sequence) position: , mismatch: 7, identity: 0.781

-gggctaatcggcacgggtgtagatcgagctat	CRISPR spacer
ctcgataa-cggcacgggtgatgatcgagctag	Protospacer
   * *** ***********  **********

5. spacer 1.13|439995|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP019279 (Escherichia coli strain 13P477T plasmid p13P477T-6, complete sequence) position: , mismatch: 7, identity: 0.781

--actttatcagcatcaagctttgttttctcaat	CRISPR spacer
ccacataa--agcatcaagtttttttttctcaac	Protospacer
  ** * *  *********.*** *********.

6. spacer 1.18|440295|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP040763 (Paracoccus sp. 2251 plasmid unnamed4, complete sequence) position: , mismatch: 8, identity: 0.75

tacacgacgcgcagggcaatgtcgtaggatct	CRISPR spacer
aacgcgacccgcagggcaatgtcgacgcctat	Protospacer
 **.**** ***************  *  * *

7. spacer 1.20|440415|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to EU350361 (Abalone shriveling syndrome-associated virus, complete genome) position: , mismatch: 8, identity: 0.75

atctcaaaaacatcattgttaacaatgccgct	CRISPR spacer
tagttaaaaacatcattgttaacaatgcttta	Protospacer
   *.***********************. .

8. spacer 1.21|440475|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP049029 (Fluviibacterium aquatile strain SC52 plasmid pSC52_1, complete sequence) position: , mismatch: 8, identity: 0.75

tcttgtccgtgatcttgacgctttctagcccg	CRISPR spacer
ccttgtgcttgatcttgacgctttggaacgca	Protospacer
.***** * ***************  *.* *.

9. spacer 1.3|439395|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP029209 (Nitratireductor sp. OM-1 plasmid pOM-1, complete sequence) position: , mismatch: 9, identity: 0.719

ggtacaagcacgacaactgggggcggtggctc	CRISPR spacer
cctacaagctcgacaactggcggcgcggttcc	Protospacer
  ******* ********** ****  * ..*

10. spacer 1.7|439635|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NC_011986 (Agrobacterium vitis S4 plasmid pAtS4a, complete sequence) position: , mismatch: 9, identity: 0.719

gggctaatcggcacgggtgtagatcgagctat	CRISPR spacer
aatgccatcggctcgggtgtagatcgcgctgt	Protospacer
..  . ****** ************* ***.*

11. spacer 1.11|439875|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to MK016493 (Brevibacterium phage Cantare, complete genome) position: , mismatch: 9, identity: 0.719

tgaatagtgtacagcacatcaacatcagacgg	CRISPR spacer
ttgatggtgtacagaacatcaacatcgagctt	Protospacer
* .**.******** ***********...*

12. spacer 1.13|439995|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to MT774394 (CrAssphage cr271_1, complete genome) position: , mismatch: 9, identity: 0.719

actttatcagcatcaagctttgttttctcaat	CRISPR spacer
tatttatcagcatcaagattttttttagcttc	Protospacer
  *************** *** ****  *  .

13. spacer 1.20|440415|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to MK310183 (UNVERIFIED: Phage NC-B, complete genome) position: , mismatch: 9, identity: 0.719

atctcaaaaacatcattgttaacaatgccgct	CRISPR spacer
ccgacaacaacatcattgttaaccatggggat	Protospacer
 .  *** *************** ***  * *

14. spacer 1.6|439575|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NC_015065 (Granulicella tundricola MP5ACTX9 plasmid pACIX902, complete sequence) position: , mismatch: 10, identity: 0.688

aatatcagcaactacatccacatcctgaaata----	CRISPR spacer
aatatcagcaacaacttccacat----ggacggcgc	Protospacer
************ ** *******    ..*..

15. spacer 1.7|439635|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP015221 (Rhodococcus sp. PBTS 2 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.688

gggctaatcggcacgggtgtagatcgagctat	CRISPR spacer
ttcaatatcggctcgggtgttgatcgagcgct	Protospacer
      ****** ******* ********  *

16. spacer 1.13|439995|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to MH511048 (Podoviridae sp. isolate ctbh1, complete genome) position: , mismatch: 11, identity: 0.656

actttatcagcatcaagctttgttttctcaat	CRISPR spacer
tgtttaccagcatcaagctttgcttgtatgtg	Protospacer
  ****.***************.** . ..

17. spacer 1.22|440535|32|NZ_CP043869|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP025613 (Niveispirillum cyanobacteriorum strain TH16 plasmid unnamed1, complete sequence) position: , mismatch: 11, identity: 0.656

atcatccgggctgatatgtcggcgtagagttc	CRISPR spacer
ctcatccgggctcatatgccggcgcttgcccg	Protospacer
 *********** *****.*****.  . ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

399801 : 410314

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_138986251.1\|399801_403194_+	PAS domain S-box protein	G3MA91	Bacillus_virus	3.9e-22	31.3
WP_138986252.1\|403235_404894_-	energy-dependent translational throttle protein EttA	A0A2K9L3Z8	Tupanvirus	9.2e-41	26.2
WP_138986253.1\|404970_405339_-	glutathione S-transferase N-terminal domain-containing protein	NA	NA	NA	NA
WP_138986254.1\|405547_406804_+	serine hydroxymethyltransferase	A0A240F3L3	Aeromonas_phage	7.6e-96	50.8
WP_138986255.1\|406925_407396_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_138986256.1\|407395_408502_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-46	36.1
WP_138986257.1\|408501_409170_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	4.0e-27	32.0
WP_138986680.1\|409195_410314_+	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	2.3e-51	36.1

DBSCAN-SWA_2

600821 : 609566

uncultured_Mediterranean_phage(33.33%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_138986435.1\|600821_602456_+	CTP synthase	A0A1J0FA14	Only_Syngen_Nebraska_virus	1.1e-155	52.7
WP_138986436.1\|602502_603798_+	phosphopyruvate hydratase	A0A1X9I5Z8	Streptococcus_phage	4.5e-136	59.8
WP_138986437.1\|603854_604160_+	cell division protein FtsB	NA	NA	NA	NA
WP_138986438.1\|604163_605207_+\|tRNA	tRNA pseudouridine(13) synthase TruD	NA	NA	NA	NA
WP_138986439.1\|605203_605956_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	2.4e-65	50.8
WP_138986440.1\|605952_606618_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	1.6e-44	54.8
WP_138986691.1\|606685_607567_+	DUF368 domain-containing protein	NA	NA	NA	NA
WP_138986441.1\|607627_608530_+	peptidoglycan DD-metalloendopeptidase family protein	I3PV24	Clostridium_phage	1.1e-11	34.5
WP_138986692.1\|608570_609566_+	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	1.1e-33	33.6

DBSCAN-SWA_3

750261 : 758739

Enterobacteria_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_138986559.1\|750261_751401_+	glycoside hydrolase family 99-like domain-containing protein	A0A1V0SDW6	Indivirus	3.1e-32	29.5
WP_138986560.1\|751397_752375_+	glycosyltransferase	NA	NA	NA	NA
WP_138986561.1\|752371_753394_+	glycosyltransferase family 4 protein	NA	NA	NA	NA
WP_138986562.1\|753394_755275_+	polysaccharide biosynthesis protein	A0A1V0SAI8	Catovirus	2.8e-17	25.5
WP_138986563.1\|755324_756416_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	9.8e-100	51.9
WP_138986564.1\|756412_757312_+	dTDP-4-dehydrorhamnose reductase	I7HXC9	Enterobacteria_phage	8.0e-23	33.1
WP_138986565.1\|757312_758188_+	glucose-1-phosphate thymidylyltransferase RfbA	A0A291LA53	Escherichia_phage	7.8e-108	65.9
WP_138986566.1\|758193_758739_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	3.4e-53	58.9

DBSCAN-SWA_4

1018974 : 1027993

Cafeteria_roenbergensis_virus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_138988777.1\|1018974_1019820_-	3-deoxy-8-phosphooctulonate synthase	E3T537	Cafeteria_roenbergensis_virus	2.1e-49	43.2
WP_138988778.1\|1019915_1020824_-	hypothetical protein	NA	NA	NA	NA
WP_138988779.1\|1020830_1021415_-	LemA family protein	NA	NA	NA	NA
WP_138988780.1\|1021460_1021667_-	DUF2788 domain-containing protein	NA	NA	NA	NA
WP_138988781.1\|1022263_1024528_+	ribonucleoside-diphosphate reductase subunit alpha	A0A2D1GNB1	Pseudoalteromonas_phage	0.0e+00	68.5
WP_138988782.1\|1024602_1025733_+	ribonucleotide-diphosphate reductase subunit beta	W6AT53	Erwinia_phage	7.1e-154	70.3
WP_138988783.1\|1025743_1026004_+	2Fe-2S ferredoxin-like protein	G9IAA2	Pseudomonas_phage	1.3e-13	49.2
WP_138988784.1\|1026373_1027009_-	endonuclease III	G3CB03	Aeropyrum_pernix_spindle-shaped_virus	2.6e-12	24.5
WP_138988879.1\|1027027_1027993_-	diguanylate cyclase	A0A127AWB9	Bacillus_phage	3.6e-21	35.1

Anti-CRISPR protein detection

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