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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_CP047783 Staphylococcus aureus strain UP_1313 chromosome, complete genome 10 crisprs cas3,DEDDh,csa3,DinG,WYL 3 3 10 1

Results visualization

1. NZ_CP047783
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP047783_1 612904-613011 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_CP047783_2 729591-729676 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_CP047783_3 906576-906733 Orphan NA
2 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP047783_4 1025044-1025136 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_CP047783_5 1186504-1186596 Unclear NA
1 spacers
cas3

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP047783_6 1420567-1420646 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_CP047783_7 1925013-1925094 Orphan NA
1 spacers
DEDDh

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP047783_8 1984728-1984813 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_CP047783_9 2232930-2233014 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_CP047783_10 2386642-2386734 Orphan NA
1 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 775943-775961 1 0.947
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 1249238-1249256 1 0.947
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 1249296-1249314 1 0.947
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 1926466-1926484 1 0.947
NZ_CP047783_9 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder 2232960-2232984 25 NZ_CP047783.1 1112081-1112105 1 0.96
NZ_CP047783_9 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder 2232960-2232984 25 NZ_CP047783.1 1820945-1820969 1 0.96
NZ_CP047783_9 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder 2232960-2232984 25 NZ_CP047783.1 2233016-2233040 1 0.96
NZ_CP047783_2 2.1|729619|30|NZ_CP047783|CRISPRCasFinder 729619-729648 30 NZ_CP047783.1 770598-770627 2 0.933
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 138755-138773 2 0.895
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 579791-579809 2 0.895
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 886392-886410 2 0.895
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 1107944-1107962 2 0.895
NZ_CP047783_3 3.2|906683|19|NZ_CP047783|PILER-CR 906683-906701 19 NZ_CP047783.1 1349855-1349873 2 0.895
NZ_CP047783_9 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder 2232960-2232984 25 NZ_CP047783.1 1112025-1112049 2 0.92

1. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 775943-775961, mismatch: 1, identity: 0.947

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccacacc	Protospacer
**************** **

2. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 1249238-1249256, mismatch: 1, identity: 0.947

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccacacc	Protospacer
**************** **

3. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 1249296-1249314, mismatch: 1, identity: 0.947

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccacacc	Protospacer
**************** **

4. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 1926466-1926484, mismatch: 1, identity: 0.947

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccacacc	Protospacer
**************** **

5. spacer 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder matches to position: 1112081-1112105, mismatch: 1, identity: 0.96

tgtcagcttctgtgttggggccccg	CRISPR spacer
tgccagcttctgtgttggggccccg	Protospacer
**.**********************

6. spacer 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder matches to position: 1820945-1820969, mismatch: 1, identity: 0.96

tgtcagcttctgtgttggggccccg	CRISPR spacer
tgtcagcttctatgttggggccccg	Protospacer
***********.*************

7. spacer 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder matches to position: 2233016-2233040, mismatch: 1, identity: 0.96

tgtcagcttctgtgttggggccccg	CRISPR spacer
tgtcagcttctatgttggggccccg	Protospacer
***********.*************

8. spacer 2.1|729619|30|NZ_CP047783|CRISPRCasFinder matches to position: 770598-770627, mismatch: 2, identity: 0.933

cagagaaattggaacgccaatttctacagg	CRISPR spacer
caaagaaattggaacaccaatttctacagg	Protospacer
**.************.**************

9. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 138755-138773, mismatch: 2, identity: 0.895

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccccacc	Protospacer
************** * **

10. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 579791-579809, mismatch: 2, identity: 0.895

ctgtgttggggcccactcc	CRISPR spacer
ctatgttggggcccacacc	Protospacer
**.************* **

11. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 886392-886410, mismatch: 2, identity: 0.895

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggggcccgcccc	Protospacer
**************.*.**

12. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 1107944-1107962, mismatch: 2, identity: 0.895

ctgtgttggggcccactcc	CRISPR spacer
ctatgttggggcccacccc	Protospacer
**.*************.**

13. spacer 3.2|906683|19|NZ_CP047783|PILER-CR matches to position: 1349855-1349873, mismatch: 2, identity: 0.895

ctgtgttggggcccactcc	CRISPR spacer
ctgtgttggagcccacccc	Protospacer
*********.******.**

14. spacer 9.1|2232960|25|NZ_CP047783|CRISPRCasFinder matches to position: 1112025-1112049, mismatch: 2, identity: 0.92

tgtcagcttctgtgttggggccccg	CRISPR spacer
tgccagcttctatgttggggccccg	Protospacer
**.********.*************

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
NZ_CP047783_1 1.1|612943|30|NZ_CP047783|CRISPRCasFinder 612943-612972 30 NZ_CP023312 Vibrio anguillarum strain VIB12 isolate Sea bass plasmid p292, complete sequence 270977-271006 7 0.767
NZ_CP047783_2 2.1|729619|30|NZ_CP047783|CRISPRCasFinder 729619-729648 30 KC139649 Salmonella phage FSL SP-069 hypothetical proteins, RdgC exonuclease, hypothetical proteins, TerL, hypothetical proteins, deoxyuridine 5'-triphosphate nucleotidohydrolase, hypothetical proteins, NinH, head morphogenesis protein, hypothetical proteins, capsid related protein, hypothetical proteins, enolase-like protein, hypothetical proteins, tail fiber, hypothetical protein, putative endolysin, hypothetical proteins, and DNA polymerase genes, complete cds 9669-9698 9 0.7
NZ_CP047783_2 2.1|729619|30|NZ_CP047783|CRISPRCasFinder 729619-729648 30 KC139636 Salmonella phage FSL SP-062 hypothetical proteins, RdgC exonuclease, hypothetical proteins, TerL, and hypothetical proteins genes, complete cds 9669-9698 9 0.7
NZ_CP047783_2 2.1|729619|30|NZ_CP047783|CRISPRCasFinder 729619-729648 30 NC_025443 Salmonella phage 9NA, complete genome 7835-7864 9 0.7
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP024776 Bacillus thuringiensis LM1212 plasmid pLM8, complete sequence 3826-3857 9 0.719
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP009062 Borreliella afzelii K78 plasmid lp28-1, complete sequence 16532-16563 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP018749 Borreliella garinii strain CIP 103362 isolate 20047 plasmid lp28-7 15178-15209 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP028869 Borreliella garinii strain 20047 plasmid lp28-7, complete sequence 11910-11941 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP028878 Borreliella bavariensis PBi plasmid lp28-7, complete sequence 4741-4772 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP028879 Borreliella bavariensis PBi plasmid lp28-9, complete sequence 11876-11907 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP017215 Borreliella burgdorferi strain B331 plasmid B331_lp28_6, complete sequence 11994-12025 10 0.688
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_018987 Borrelia burgdorferi 297 plasmid 297_lp28-6, complete sequence 12713-12744 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_017412 Borreliella burgdorferi JD1 plasmid JD1 lp28-7, complete sequence 17252-17283 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_017419 Borreliella burgdorferi N40 plasmid N40_lp28-2, complete sequence 17030-17061 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_017408 Borreliella burgdorferi JD1 plasmid JD1 lp28-6, complete sequence 14812-14843 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_015920 Borreliella bissettii DN127 plasmid lp56, complete sequence 16601-16632 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_011779 Borreliella burgdorferi ZS7 plasmid ZS7_lp28-2, complete sequence 16934-16965 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NC_001852 Borreliella burgdorferi B31 plasmid lp28-2, complete sequence 16891-16922 15 0.531
NZ_CP047783_7 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder 1925038-1925069 32 NZ_CP017219 Borreliella burgdorferi strain B331 plasmid B331_lp56, complete sequence 14876-14907 15 0.531

1. spacer 1.1|612943|30|NZ_CP047783|CRISPRCasFinder matches to NZ_CP023312 (Vibrio anguillarum strain VIB12 isolate Sea bass plasmid p292, complete sequence) position: , mismatch: 7, identity: 0.767

gttaaagaatacagttggtttgcttgcgca	CRISPR spacer
aagtaagaatacagttgctttgctcgcgcc	Protospacer
.   ************* ******.**** 

2. spacer 2.1|729619|30|NZ_CP047783|CRISPRCasFinder matches to KC139649 (Salmonella phage FSL SP-069 hypothetical proteins, RdgC exonuclease, hypothetical proteins, TerL, hypothetical proteins, deoxyuridine 5'-triphosphate nucleotidohydrolase, hypothetical proteins, NinH, head morphogenesis protein, hypothetical proteins, capsid related protein, hypothetical proteins, enolase-like protein, hypothetical proteins, tail fiber, hypothetical protein, putative endolysin, hypothetical proteins, and DNA polymerase genes, complete cds) position: , mismatch: 9, identity: 0.7

cagagaaattggaacgccaatttctacagg	CRISPR spacer
agctttaattggtacgccaatttctacatc	Protospacer
 .    ****** ***************  

3. spacer 2.1|729619|30|NZ_CP047783|CRISPRCasFinder matches to KC139636 (Salmonella phage FSL SP-062 hypothetical proteins, RdgC exonuclease, hypothetical proteins, TerL, and hypothetical proteins genes, complete cds) position: , mismatch: 9, identity: 0.7

cagagaaattggaacgccaatttctacagg	CRISPR spacer
agctttaattggtacgccaatttctacatc	Protospacer
 .    ****** ***************  

4. spacer 2.1|729619|30|NZ_CP047783|CRISPRCasFinder matches to NC_025443 (Salmonella phage 9NA, complete genome) position: , mismatch: 9, identity: 0.7

cagagaaattggaacgccaatttctacagg	CRISPR spacer
agctttaattggtacgccaatttctacatc	Protospacer
 .    ****** ***************  

5. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP024776 (Bacillus thuringiensis LM1212 plasmid pLM8, complete sequence) position: , mismatch: 9, identity: 0.719

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
caaattaggatttcttttttcgaaatccttga	Protospacer
     ***.*****************.**. *

6. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP009062 (Borreliella afzelii K78 plasmid lp28-1, complete sequence) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggaaatagaatttgttttttagaaattcttgt	Protospacer
.   .******** ****** ********.  

7. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP018749 (Borreliella garinii strain CIP 103362 isolate 20047 plasmid lp28-7) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggaaatagaatttgttttttagaaattcttgt	Protospacer
.   .******** ****** ********.  

8. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP028869 (Borreliella garinii strain 20047 plasmid lp28-7, complete sequence) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggaaatagaatttgttttttagaaattcttgt	Protospacer
.   .******** ****** ********.  

9. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP028878 (Borreliella bavariensis PBi plasmid lp28-7, complete sequence) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggaaatagaatttgttttttagaaattcttgt	Protospacer
.   .******** ****** ********.  

10. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP028879 (Borreliella bavariensis PBi plasmid lp28-9, complete sequence) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggaaatagaatttgttttttagaaattcttgt	Protospacer
.   .******** ****** ********.  

11. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP017215 (Borreliella burgdorferi strain B331 plasmid B331_lp28_6, complete sequence) position: , mismatch: 10, identity: 0.688

acctgtagaatttcttttttcgaaattctcta	CRISPR spacer
ggcaacagaatttgttttttagaaattcttgt	Protospacer
. * ..******* ****** ********.  

12. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_018987 (Borrelia burgdorferi 297 plasmid 297_lp28-6, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

13. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_017412 (Borreliella burgdorferi JD1 plasmid JD1 lp28-7, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

14. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_017419 (Borreliella burgdorferi N40 plasmid N40_lp28-2, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

15. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_017408 (Borreliella burgdorferi JD1 plasmid JD1 lp28-6, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

16. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_015920 (Borreliella bissettii DN127 plasmid lp56, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

17. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_011779 (Borreliella burgdorferi ZS7 plasmid ZS7_lp28-2, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

18. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NC_001852 (Borreliella burgdorferi B31 plasmid lp28-2, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

19. spacer 7.1|1925038|32|NZ_CP047783|CRISPRCasFinder matches to NZ_CP017219 (Borreliella burgdorferi strain B331 plasmid B331_lp56, complete sequence) position: , mismatch: 15, identity: 0.531

acctgtagaatttcttttttcgaaattctcta---	CRISPR spacer
---acaagaatttctaaaaaacaaattctgttgcc	Protospacer
      *********       ******* *    

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 707941 : 715761 10 Hokovirus(16.67%) NA NA
DBSCAN-SWA_2 727742 : 742195 14 uncultured_Caudovirales_phage(50.0%) NA NA
DBSCAN-SWA_3 822494 : 843996 33 Staphylococcus_phage(77.78%) terminase,integrase,coat attL 821073:821094|attR 841464:841485
DBSCAN-SWA_4 932397 : 976115 39 Streptococcus_phage(33.33%) protease,transposase,tRNA,holin,bacteriocin NA
DBSCAN-SWA_5 1010272 : 1018745 9 Synechococcus_phage(33.33%) NA NA
DBSCAN-SWA_6 1272380 : 1312816 51 Staphylococcus_phage(52.63%) capsid,integrase,transposase,tRNA,bacteriocin,head attL 1272702:1272719|attR 1315724:1315741
DBSCAN-SWA_7 1582953 : 1591265 7 Staphylococcus_phage(16.67%) tRNA NA
DBSCAN-SWA_8 1661795 : 1670838 7 uncultured_Mediterranean_phage(50.0%) tRNA NA
DBSCAN-SWA_9 1808027 : 1842745 40 Staphylococcus_phage(93.75%) protease NA
DBSCAN-SWA_10 1848299 : 1856614 10 Staphylococcus_phage(70.0%) transposase NA
Click the colored protein region to show detailed information
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage
NZ_CP047783.1|WP_000384171.1|1822224_1822449_-|hypothetical-protein 1822224_1822449_- 74 aa aa NA NA NA 1808027-1842745 yes