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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_CP053259 Escherichia coli strain GF3-3 chromosome, complete genome 6 crisprs csa3,cas3,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,RT,cas14j,DEDDh,DinG,c2c9_V-U4 0 7 5 0

Results visualization

1. NZ_CP053259
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_1 619975-620076 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_2 1028699-1029338 TypeI-E I-E
10 spacers
cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_3 2117291-2117414 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_4 2828494-2828585 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_5 3553316-3553458 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP053259_6 4093963-4094112 Orphan NA
1 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
NZ_CP053259_4 4.1|2828520|40|NZ_CP053259|CRISPRCasFinder 2828520-2828559 40 NZ_CP041417 Escherichia coli strain STEC711 plasmid pSTEC711_1, complete sequence 47951-47990 0 1.0
NZ_CP053259_2 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028728-1028759 32 MH023293 Escherichia coli Phage vB_EcoS-Sa179lw, complete genome 38252-38283 1 0.969
NZ_CP053259_2 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028728-1028759 32 MH321493 Salmonella phage Skate, complete genome 3828-3859 2 0.938
NZ_CP053259_2 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028728-1028759 32 MK112901 Salmonella virus KFS-SE2, complete genome 12590-12621 2 0.938
NZ_CP053259_2 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028728-1028759 32 MH791410 UNVERIFIED: Salmonella phage Seszw_1, complete genome 38498-38529 2 0.938
NZ_CP053259_2 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028728-1028759 32 MN871490 UNVERIFIED: Salmonella phage SEzh_1, complete genome 1768-1799 2 0.938
NZ_CP053259_3 3.1|2117334|38|NZ_CP053259|CRISPRCasFinder 2117334-2117371 38 NZ_CP043437 Enterobacter sp. LU1 plasmid unnamed 113727-113764 2 0.947
NZ_CP053259_5 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder 3553359-3553415 57 NZ_CP053606 Escherichia coli strain NEB_Turbo plasmid F', complete sequence 231490-231546 5 0.912
NZ_CP053259_5 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder 3553359-3553415 57 NZ_CP053608 Escherichia coli strain NEB5-alpha_F'Iq plasmid F'Iq, complete sequence 241984-242040 5 0.912
NZ_CP053259_5 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder 3553359-3553415 57 NZ_CP014271 Escherichia coli K-12 strain K-12 DHB4 plasmid F128-(DHB4), complete sequence 232896-232952 5 0.912
NZ_CP053259_5 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder 3553359-3553415 57 NZ_CP014273 Escherichia coli K-12 strain K-12 C3026 plasmid F128-(C3026), complete sequence 213866-213922 5 0.912
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 NC_014824 Ruminococcus albus 7 = DSM 20455 plasmid pRUMAL01, complete sequence 29248-29279 8 0.75
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 MN813687 Mycobacterium phage Onyinye, complete genome 55090-55121 8 0.75
NZ_CP053259_2 2.4|1028912|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028912-1028943 32 NZ_CP045959 Salmonella enterica subsp. enterica serovar Birkenhead strain AUSMDU00010532 plasmid pAUSMDU00010532_01, complete sequence 26456-26487 9 0.719
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 NZ_CP032695 Rhizobium jaguaris strain CCGE525 plasmid pRCCGE525c, complete sequence 1509616-1509647 9 0.719
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 NZ_CP017105 Rhizobium gallicum strain IE4872 plasmid pRgalIE4872d, complete sequence 1480713-1480744 10 0.688
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 CP006880 Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602c, complete sequence 1623089-1623120 10 0.688
NZ_CP053259_2 2.3|1028851|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1028851-1028882 32 NC_022111 Prevotella sp. oral taxon 299 str. F0039 plasmid, complete sequence 1234066-1234097 11 0.656
NZ_CP053259_2 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT 1029095-1029126 32 NZ_CP017244 Rhizobium etli 8C-3 plasmid pRsp8C3c, complete sequence 672079-672110 11 0.656
NZ_CP053259_5 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder 3553359-3553415 57 NZ_AP023206 Escherichia coli strain TUM18781 plasmid pMTY18781-1_lncX3, complete sequence 210153-210209 16 0.719

1. spacer 4.1|2828520|40|NZ_CP053259|CRISPRCasFinder matches to NZ_CP041417 (Escherichia coli strain STEC711 plasmid pSTEC711_1, complete sequence) position: , mismatch: 0, identity: 1.0

gcgctgcgggtcattcttgaaattacccccgctgtgctgt	CRISPR spacer
gcgctgcgggtcattcttgaaattacccccgctgtgctgt	Protospacer
****************************************

2. spacer 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MH023293 (Escherichia coli Phage vB_EcoS-Sa179lw, complete genome) position: , mismatch: 1, identity: 0.969

tcttccacggcactttcctggtattcgtacat	CRISPR spacer
tcttccacggcgctttcctggtattcgtacat	Protospacer
***********.********************

3. spacer 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MH321493 (Salmonella phage Skate, complete genome) position: , mismatch: 2, identity: 0.938

tcttccacggcactttcctggtattcgtacat	CRISPR spacer
tcttccacggcgctttcctggtattcatacat	Protospacer
***********.**************.*****

4. spacer 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MK112901 (Salmonella virus KFS-SE2, complete genome) position: , mismatch: 2, identity: 0.938

tcttccacggcactttcctggtattcgtacat	CRISPR spacer
tcttcaacggcactttcctgatattcgtacat	Protospacer
***** **************.***********

5. spacer 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MH791410 (UNVERIFIED: Salmonella phage Seszw_1, complete genome) position: , mismatch: 2, identity: 0.938

tcttccacggcactttcctggtattcgtacat	CRISPR spacer
tcttccacggcgctttcctgatattcgtacat	Protospacer
***********.********.***********

6. spacer 2.1|1028728|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MN871490 (UNVERIFIED: Salmonella phage SEzh_1, complete genome) position: , mismatch: 2, identity: 0.938

tcttccacggcactttcctggtattcgtacat	CRISPR spacer
tcttccacggcactttcctgatattcatacat	Protospacer
********************.*****.*****

7. spacer 3.1|2117334|38|NZ_CP053259|CRISPRCasFinder matches to NZ_CP043437 (Enterobacter sp. LU1 plasmid unnamed) position: , mismatch: 2, identity: 0.947

cggacgcaggatggtgcgttcaattggactcgaaccaa	CRISPR spacer
cagacgcagaatggtgcgttcaattggactcgaaccaa	Protospacer
*.*******.****************************

8. spacer 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder matches to NZ_CP053606 (Escherichia coli strain NEB_Turbo plasmid F', complete sequence) position: , mismatch: 5, identity: 0.912

cttcgcccgtaaaccgtaggcctgataagacgcgcaaagcgtcgcatcaggcatggc	CRISPR spacer
cttcgcccataaaccgtaggcctgataagacgcgcatagcgtcgcatcaggcatctg	Protospacer
********.*************************** *****************   

9. spacer 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder matches to NZ_CP053608 (Escherichia coli strain NEB5-alpha_F'Iq plasmid F'Iq, complete sequence) position: , mismatch: 5, identity: 0.912

cttcgcccgtaaaccgtaggcctgataagacgcgcaaagcgtcgcatcaggcatggc	CRISPR spacer
cttcgcccataaaccgtaggcctgataagacgcgcatagcgtcgcatcaggcatctg	Protospacer
********.*************************** *****************   

10. spacer 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder matches to NZ_CP014271 (Escherichia coli K-12 strain K-12 DHB4 plasmid F128-(DHB4), complete sequence) position: , mismatch: 5, identity: 0.912

cttcgcccgtaaaccgtaggcctgataagacgcgcaaagcgtcgcatcaggcatggc	CRISPR spacer
cttcgcccataaaccgtaggcctgataagacgcgcatagcgtcgcatcaggcatctg	Protospacer
********.*************************** *****************   

11. spacer 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder matches to NZ_CP014273 (Escherichia coli K-12 strain K-12 C3026 plasmid F128-(C3026), complete sequence) position: , mismatch: 5, identity: 0.912

cttcgcccgtaaaccgtaggcctgataagacgcgcaaagcgtcgcatcaggcatggc	CRISPR spacer
cttcgcccataaaccgtaggcctgataagacgcgcatagcgtcgcatcaggcatctg	Protospacer
********.*************************** *****************   

12. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NC_014824 (Ruminococcus albus 7 = DSM 20455 plasmid pRUMAL01, complete sequence) position: , mismatch: 8, identity: 0.75

-agctacgttgccattgatatcaacggcacgcc	CRISPR spacer
tggcca-attggcattgatatcgacggcacgat	Protospacer
 .**.* .*** **********.******** .

13. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to MN813687 (Mycobacterium phage Onyinye, complete genome) position: , mismatch: 8, identity: 0.75

agctac-gttgccattgatatcaacggcacgcc	CRISPR spacer
-cctgtagttgcaattgatatcgacggcacact	Protospacer
  **.. ***** *********.*******.*.

14. spacer 2.4|1028912|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP045959 (Salmonella enterica subsp. enterica serovar Birkenhead strain AUSMDU00010532 plasmid pAUSMDU00010532_01, complete sequence) position: , mismatch: 9, identity: 0.719

ttgccggtacagctccagcattaatccccacc	CRISPR spacer
ctgccggtacagctccggcagtaaaattgtcc	Protospacer
.***************.*** ***  ..  **

15. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP032695 (Rhizobium jaguaris strain CCGE525 plasmid pRCCGE525c, complete sequence) position: , mismatch: 9, identity: 0.719

agctacgttgccattgatatcaacggcacgcc	CRISPR spacer
actgtccttgccattgatatcggcggcacgaa	Protospacer
* .  * **************..*******  

16. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017105 (Rhizobium gallicum strain IE4872 plasmid pRgalIE4872d, complete sequence) position: , mismatch: 10, identity: 0.688

agctacgttgccattgatatcaacggcacgcc	CRISPR spacer
gccgtcgttgccatcgatgtcaacggcatcat	Protospacer
. *  *********.***.*********.  .

17. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to CP006880 (Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602c, complete sequence) position: , mismatch: 10, identity: 0.688

agctacgttgccattgatatcaacggcacgcc	CRISPR spacer
gccgtcgttgccatcgatgtcaacggcatcat	Protospacer
. *  *********.***.*********.  .

18. spacer 2.3|1028851|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NC_022111 (Prevotella sp. oral taxon 299 str. F0039 plasmid, complete sequence) position: , mismatch: 11, identity: 0.656

gtttaaagacaatcaagggactattgttgaca	CRISPR spacer
tcacccagacaatcaaggtattattgttgttg	Protospacer
 . .  ************ *.******** ..

19. spacer 2.7|1029095|32|NZ_CP053259|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017244 (Rhizobium etli 8C-3 plasmid pRsp8C3c, complete sequence) position: , mismatch: 11, identity: 0.656

agctacgttgccattgatatcaacggcacgcc	CRISPR spacer
gcagtcgttgccatcgatgtcaacggcatcat	Protospacer
.    *********.***.*********.  .

20. spacer 5.1|3553359|57|NZ_CP053259|CRISPRCasFinder matches to NZ_AP023206 (Escherichia coli strain TUM18781 plasmid pMTY18781-1_lncX3, complete sequence) position: , mismatch: 16, identity: 0.719

cttcgcccgtaaaccgtaggcctgataagacgcgcaaagcgtcgcatcaggcatggc	CRISPR spacer
tgtctgatgccgcacgtaggcctgataagacgcggacagcgtcgcatcaggcatctt	Protospacer
. **   .*. .  ******************** * *****************  .

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 1045692 : 1052832 6 Escherichia_phage(83.33%) NA NA
DBSCAN-SWA_2 1666726 : 1676168 10 Enterobacteria_phage(85.71%) NA NA
DBSCAN-SWA_3 1772616 : 1778924 6 Enterobacteria_phage(50.0%) NA NA
DBSCAN-SWA_4 2190704 : 2254395 67 Enterobacteria_phage(50.0%) lysis,portal,protease,terminase,integrase,tail attL 2202885:2202900|attR 2240778:2240793
DBSCAN-SWA_5 3598933 : 3696321 108 Shigella_phage(54.24%) lysis,transposase,head,protease,portal,plate,terminase,holin,integrase,capsid,tail attL 3642598:3642653|attR 3681512:3681567
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage