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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_CP012119 Staphylococcus aureus subsp. aureus strain USA300_2014.C01 chromosome, complete genome 9 crisprs DEDDh,DinG,cas3,csa3,WYL 8 4 10 1
NZ_CP012118 Staphylococcus aureus subsp. aureus strain USA300_2014.C01 plasmid pC01, complete sequence 0 crisprs csa3 0 0 0 0
NZ_CP025490 Staphylococcus aureus subsp. aureus strain USA300_2014.C01 plasmid pC01a, complete sequence 0 crisprs NA 0 0 0 0

Results visualization

1. NZ_CP012119
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP012119_1 62745-63027 Orphan NA
4 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP012119_2 196418-196505 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_CP012119_3 1182044-1182122 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_CP012119_4 1416894-1417044 Orphan NA
2 spacers
csa3

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP012119_5 1540812-1541005 Orphan NA
3 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP012119_6 2457003-2457103 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_CP012119_7 2698711-2698803 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_CP012119_8 2874520-2874605 Unclear NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP012119_9 2917791-2917872 Orphan NA
1 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
NZ_CP012119_5 5.2|1540891|36|NZ_CP012119|CRT 1540891-1540926 36 NZ_CP012119.2 280693-280728 0 1.0
NZ_CP012119_9 9.1|2917815|34|NZ_CP012119|CRISPRCasFinder 2917815-2917848 34 NZ_CP012119.2 488944-488977 0 1.0
NZ_CP012119_9 9.1|2917815|34|NZ_CP012119|CRISPRCasFinder 2917815-2917848 34 NZ_CP012119.2 578136-578169 0 1.0
NZ_CP012119_1 1.1|62775|26|NZ_CP012119|CRT 62775-62800 26 NZ_CP012119.2 62719-62744 1 0.962
NZ_CP012119_1 1.3|62889|26|NZ_CP012119|CRT 62889-62914 26 NZ_CP012119.2 2874606-2874631 1 0.962
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 280749-280781 1 0.97
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 488899-488931 1 0.97
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 803415-803447 1 0.97
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 1816780-1816812 1 0.97
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 2874586-2874618 1 0.97
NZ_CP012119_5 5.2|1540891|36|NZ_CP012119|CRT 1540891-1540926 36 NZ_CP012119.2 981862-981897 1 0.972
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP012119.2 1982130-1982155 1 0.962
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP012119.2 1982186-1982211 1 0.962
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP012119.2 2837488-2837513 1 0.962
NZ_CP012119_1 1.1|62775|26|NZ_CP012119|CRT 62775-62800 26 NZ_CP012119.2 1982130-1982155 2 0.923
NZ_CP012119_1 1.1|62775|26|NZ_CP012119|CRT 62775-62800 26 NZ_CP012119.2 1982186-1982211 2 0.923
NZ_CP012119_1 1.1|62775|26|NZ_CP012119|CRT 62775-62800 26 NZ_CP012119.2 2837488-2837513 2 0.923
NZ_CP012119_1 1.3|62889|26|NZ_CP012119|CRT 62889-62914 26 NZ_CP012119.2 2418336-2418361 2 0.923
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NZ_CP012119.2 578182-578214 2 0.939
NZ_CP012119_5 5.1|1540835|33|NZ_CP012119|CRT 1540835-1540867 33 NZ_CP012119.2 280749-280781 2 0.939
NZ_CP012119_5 5.1|1540835|33|NZ_CP012119|CRT 1540835-1540867 33 NZ_CP012119.2 488899-488931 2 0.939
NZ_CP012119_5 5.1|1540835|33|NZ_CP012119|CRT 1540835-1540867 33 NZ_CP012119.2 578182-578214 2 0.939
NZ_CP012119_5 5.1|1540835|33|NZ_CP012119|CRT 1540835-1540867 33 NZ_CP012119.2 1816780-1816812 2 0.939
NZ_CP012119_5 5.1|1540835|33|NZ_CP012119|CRT 1540835-1540867 33 NZ_CP012119.2 2874586-2874618 2 0.939
NZ_CP012119_5 5.2|1540891|36|NZ_CP012119|CRT 1540891-1540926 36 NZ_CP012119.2 803354-803389 2 0.944
NZ_CP012119_5 5.2|1540891|36|NZ_CP012119|CRT 1540891-1540926 36 NZ_CP012119.2 1192811-1192846 2 0.944
NZ_CP012119_5 5.3|1540950|33|NZ_CP012119|CRT 1540950-1540982 33 NZ_CP012119.2 280749-280781 2 0.939
NZ_CP012119_5 5.3|1540950|33|NZ_CP012119|CRT 1540950-1540982 33 NZ_CP012119.2 488899-488931 2 0.939
NZ_CP012119_5 5.3|1540950|33|NZ_CP012119|CRT 1540950-1540982 33 NZ_CP012119.2 1816780-1816812 2 0.939
NZ_CP012119_5 5.3|1540950|33|NZ_CP012119|CRT 1540950-1540982 33 NZ_CP012119.2 2874586-2874618 2 0.939
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP012119.2 62719-62744 2 0.923
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP012119.2 2837544-2837569 2 0.923

1. spacer 5.2|1540891|36|NZ_CP012119|CRT matches to position: 280693-280728, mismatch: 0, identity: 1.0

tgcattgtctgtagaatttctttttgaaattctcta	CRISPR spacer
tgcattgtctgtagaatttctttttgaaattctcta	Protospacer
************************************

2. spacer 9.1|2917815|34|NZ_CP012119|CRISPRCasFinder matches to position: 488944-488977, mismatch: 0, identity: 1.0

attgggaatccaatttctctttgttggggcccat	CRISPR spacer
attgggaatccaatttctctttgttggggcccat	Protospacer
**********************************

3. spacer 9.1|2917815|34|NZ_CP012119|CRISPRCasFinder matches to position: 578136-578169, mismatch: 0, identity: 1.0

attgggaatccaatttctctttgttggggcccat	CRISPR spacer
attgggaatccaatttctctttgttggggcccat	Protospacer
**********************************

4. spacer 1.1|62775|26|NZ_CP012119|CRT matches to position: 62719-62744, mismatch: 1, identity: 0.962

cggggccccaacacagaggctggcgg	CRISPR spacer
cggggccccaacacagaggctggtgg	Protospacer
***********************.**

5. spacer 1.3|62889|26|NZ_CP012119|CRT matches to position: 2874606-2874631, mismatch: 1, identity: 0.962

cggggccccaacacagaagctggcga	CRISPR spacer
cggggccccaacacagaagctgacga	Protospacer
**********************.***

6. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 280749-280781, mismatch: 1, identity: 0.97

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
******.**************************

7. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 488899-488931, mismatch: 1, identity: 0.97

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
******.**************************

8. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 803415-803447, mismatch: 1, identity: 0.97

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattatagtaagctgacttttcgtcagcttctg	Protospacer
****** **************************

9. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 1816780-1816812, mismatch: 1, identity: 0.97

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
******.**************************

10. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 2874586-2874618, mismatch: 1, identity: 0.97

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
******.**************************

11. spacer 5.2|1540891|36|NZ_CP012119|CRT matches to position: 981862-981897, mismatch: 1, identity: 0.972

tgcattgtctgtagaatttctttttgaaattctcta	CRISPR spacer
tgcattgtctgtagaatttcttttcgaaattctcta	Protospacer
************************.***********

12. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to position: 1982130-1982155, mismatch: 1, identity: 0.962

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgccagcttctatgttggggccccg	Protospacer
************.*************

13. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to position: 1982186-1982211, mismatch: 1, identity: 0.962

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgccagcttctttgttggggccccg	Protospacer
************ *************

14. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to position: 2837488-2837513, mismatch: 1, identity: 0.962

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgcctgcttctgtgttggggccccg	Protospacer
***** ********************

15. spacer 1.1|62775|26|NZ_CP012119|CRT matches to position: 1982130-1982155, mismatch: 2, identity: 0.923

cggggccccaacacagaggctggcgg	CRISPR spacer
cggggccccaacatagaagctggcgg	Protospacer
*************.***.********

16. spacer 1.1|62775|26|NZ_CP012119|CRT matches to position: 1982186-1982211, mismatch: 2, identity: 0.923

cggggccccaacacagaggctggcgg	CRISPR spacer
cggggccccaacaaagaagctggcgg	Protospacer
************* ***.********

17. spacer 1.1|62775|26|NZ_CP012119|CRT matches to position: 2837488-2837513, mismatch: 2, identity: 0.923

cggggccccaacacagaggctggcgg	CRISPR spacer
cggggccccaacacagaagcaggcgg	Protospacer
*****************.** *****

18. spacer 1.3|62889|26|NZ_CP012119|CRT matches to position: 2418336-2418361, mismatch: 2, identity: 0.923

cggggccccaacacagaagctggcga	CRISPR spacer
cggggccccaacaaagaagctgacga	Protospacer
************* ********.***

19. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to position: 578182-578214, mismatch: 2, identity: 0.939

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcatcttctg	Protospacer
******.******************* ******

20. spacer 5.1|1540835|33|NZ_CP012119|CRT matches to position: 280749-280781, mismatch: 2, identity: 0.939

cattattgtatgctgacttttcgtcaccttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********** *************** ******

21. spacer 5.1|1540835|33|NZ_CP012119|CRT matches to position: 488899-488931, mismatch: 2, identity: 0.939

cattattgtatgctgacttttcgtcaccttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********** *************** ******

22. spacer 5.1|1540835|33|NZ_CP012119|CRT matches to position: 578182-578214, mismatch: 2, identity: 0.939

cattattgtatgctgacttttcgtcaccttctg	CRISPR spacer
cattattgtaagctgacttttcgtcatcttctg	Protospacer
********** ***************.******

23. spacer 5.1|1540835|33|NZ_CP012119|CRT matches to position: 1816780-1816812, mismatch: 2, identity: 0.939

cattattgtatgctgacttttcgtcaccttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********** *************** ******

24. spacer 5.1|1540835|33|NZ_CP012119|CRT matches to position: 2874586-2874618, mismatch: 2, identity: 0.939

cattattgtatgctgacttttcgtcaccttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********** *************** ******

25. spacer 5.2|1540891|36|NZ_CP012119|CRT matches to position: 803354-803389, mismatch: 2, identity: 0.944

tgcattgtctgtagaatttctttttgaaattctcta	CRISPR spacer
tgcattgcctgtagaatttcttttcgaaattctcta	Protospacer
*******.****************.***********

26. spacer 5.2|1540891|36|NZ_CP012119|CRT matches to position: 1192811-1192846, mismatch: 2, identity: 0.944

tgcattgtctgtagaatttctttttgaaattctcta	CRISPR spacer
tgcattgtctgtagaatttcctttcgaaattctcta	Protospacer
********************.***.***********

27. spacer 5.3|1540950|33|NZ_CP012119|CRT matches to position: 280749-280781, mismatch: 2, identity: 0.939

cattattgtaagctgactttctgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********************..***********

28. spacer 5.3|1540950|33|NZ_CP012119|CRT matches to position: 488899-488931, mismatch: 2, identity: 0.939

cattattgtaagctgactttctgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********************..***********

29. spacer 5.3|1540950|33|NZ_CP012119|CRT matches to position: 1816780-1816812, mismatch: 2, identity: 0.939

cattattgtaagctgactttctgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********************..***********

30. spacer 5.3|1540950|33|NZ_CP012119|CRT matches to position: 2874586-2874618, mismatch: 2, identity: 0.939

cattattgtaagctgactttctgtcagcttctg	CRISPR spacer
cattattgtaagctgacttttcgtcagcttctg	Protospacer
********************..***********

31. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to position: 62719-62744, mismatch: 2, identity: 0.923

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccaccagcctctgtgttggggccccg	Protospacer
**.*****.*****************

32. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to position: 2837544-2837569, mismatch: 2, identity: 0.923

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgcctgcttctatgttggggccccg	Protospacer
***** ******.*************

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
NZ_CP012119_1 1.4|62945|53|NZ_CP012119|CRT 62945-62997 53 MG543995 Staphylococcus phage UPMK_1, partial genome 76246-76298 4 0.925
NZ_CP012119_1 1.3|62889|26|NZ_CP012119|CRT 62889-62914 26 NZ_CP022541 Antarctobacter heliothermus strain SMS3 plasmid pSMS3-1, complete sequence 333735-333760 5 0.808
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP022541 Antarctobacter heliothermus strain SMS3 plasmid pSMS3-1, complete sequence 333735-333760 5 0.808
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP034332 Tabrizicola piscis strain K13M18 plasmid unnamed4, complete sequence 3359-3384 5 0.808
NZ_CP012119_8 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder 2874550-2874575 26 NZ_CP022605 Ochrobactrum quorumnocens strain A44 plasmid unnamed1, complete sequence 715511-715536 5 0.808
NZ_CP012119_3 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder 1182067-1182099 33 NC_021536 Synechococcus phage S-IOM18 genomic sequence 159745-159777 10 0.697

1. spacer 1.4|62945|53|NZ_CP012119|CRT matches to MG543995 (Staphylococcus phage UPMK_1, partial genome) position: , mismatch: 4, identity: 0.925

ggtgggacgacgaaataaattttgcgaaaatatcatttctgtcccactcccaa	CRISPR spacer
ggtgggacgacgaaataaattttgagaaactatcatttctgtcccactccctt	Protospacer
************************ **** *********************  

2. spacer 1.3|62889|26|NZ_CP012119|CRT matches to NZ_CP022541 (Antarctobacter heliothermus strain SMS3 plasmid pSMS3-1, complete sequence) position: , mismatch: 5, identity: 0.808

cggggccccaacacagaagctggcga	CRISPR spacer
taaggcctcaacacagaagctggcgt	Protospacer
...****.***************** 

3. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to NZ_CP022541 (Antarctobacter heliothermus strain SMS3 plasmid pSMS3-1, complete sequence) position: , mismatch: 5, identity: 0.808

ccgccagcttctgtgttggggccccg	CRISPR spacer
acgccagcttctgtgttgaggcctta	Protospacer
 *****************.****...

4. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to NZ_CP034332 (Tabrizicola piscis strain K13M18 plasmid unnamed4, complete sequence) position: , mismatch: 5, identity: 0.808

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgccagcttctgtgtctgggcctac	Protospacer
****************. *****.  

5. spacer 8.1|2874550|26|NZ_CP012119|CRISPRCasFinder matches to NZ_CP022605 (Ochrobactrum quorumnocens strain A44 plasmid unnamed1, complete sequence) position: , mismatch: 5, identity: 0.808

ccgccagcttctgtgttggggccccg	CRISPR spacer
ccgccagcttctgtgtttggccctga	Protospacer
***************** ** **. .

6. spacer 3.1|1182067|33|NZ_CP012119|CRISPRCasFinder matches to NC_021536 (Synechococcus phage S-IOM18 genomic sequence) position: , mismatch: 10, identity: 0.697

cattatcgtaagctgacttttcgtcagcttctg	CRISPR spacer
ttttatcgtaaggtgagttttcgtcaagcacct	Protospacer
. ********** *** *********. . *. 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 1496 : 17325 21 Staphylococcus_phage(64.71%) integrase,capsid attL 4033:4049|attR 17989:18005
DBSCAN-SWA_2 181642 : 190115 9 Synechococcus_phage(33.33%) NA NA
DBSCAN-SWA_3 631908 : 714159 103 Staphylococcus_phage(85.33%) integrase,tRNA,plate,portal,holin,terminase,head,capsid,protease,tail attL 668271:668291|attR 714164:714184
DBSCAN-SWA_4 774977 : 783289 7 Staphylococcus_phage(16.67%) tRNA NA
DBSCAN-SWA_5 852426 : 861469 7 uncultured_Mediterranean_phage(50.0%) tRNA NA
DBSCAN-SWA_6 986925 : 1066268 73 Staphylococcus_phage(94.74%) protease,tRNA,transposase NA
DBSCAN-SWA_7 1096928 : 1172092 93 Staphylococcus_phage(67.14%) integrase,tRNA,plate,transposase,holin,portal,head,capsid,terminase,tail attL 1123751:1123765|attR 1172434:1172448
DBSCAN-SWA_8 1194907 : 1291302 117 Staphylococcus_phage(91.03%) integrase,tRNA,portal,holin,terminase,head,capsid,protease,tail attL 1256293:1256310|attR 1281224:1281241
DBSCAN-SWA_9 2806179 : 2813999 10 Hokovirus(16.67%) NA NA
DBSCAN-SWA_10 2825971 : 2840702 14 uncultured_Caudovirales_phage(50.0%) NA 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_CP012119.2|WP_001790641.1|2829554_2829656_+|hypothetical-protein 2829554_2829656_+ 33 aa aa NA NA NA 2825971-2840702 yes