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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
NC_011059 Prosthecochloris aestuarii DSM 271, complete sequence 7 crisprs Cas9_archaeal,PD-DExK,csa3,cas6,RT,cas3,DEDDh,cas2,cas1,cas5,cas7,cas6e,cse2gr11,cas8e,WYL,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5,cas4 1 13 4 0
NC_011061 Prosthecochloris aestuarii DSM 271 plasmid pPAES01, complete sequence 0 crisprs RT 0 0 1 0

Results visualization

1. NC_011059
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_1 500712-500819 Orphan NA
1 spacers
csa3

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_2 1536024-1538308 TypeI-E I-E,II-B
37 spacers
cas2,cas1,cas5,cas7,cas6e,cse2gr11,cas8e,cas3,DEDDh,WYL

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_3 1896314-1896402 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_4 2174895-2175529 TypeIII NA
8 spacers
cas1,cas6,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_5 2177296-2177690 TypeIII NA
5 spacers
cas6,cas1,cmr1gr7,cmr6gr7,cas10,cmr4gr7,cmr5gr11,cmr3gr5

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_6 2188672-2188786 TypeIII NA
1 spacers
cmr3gr5,cmr5gr11,cmr4gr7,cas10,cmr6gr7,cmr1gr7,cas6,cas1

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NC_011059_7 2189181-2189643 TypeIII NA
6 spacers
cmr3gr5,cmr5gr11,cmr4gr7,cas10,cmr6gr7,cmr1gr7,cas6,cas1

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
NC_011059_2 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT 1536052-1536084 33 NC_011059.1 494741-494773 0 1.0

1. spacer 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT matches to position: 494741-494773, mismatch: 0, identity: 1.0

tccttccggcgtgacgaaggtgcaggatgggtg	CRISPR spacer
tccttccggcgtgacgaaggtgcaggatgggtg	Protospacer
*********************************

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
NC_011059_2 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR 1537394-1537426 33 MH617307 Microviridae sp. isolate ctbd738, complete genome 1876-1908 4 0.879
NC_011059_2 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR 1537394-1537426 33 MH572288 Microviridae sp. isolate SD_SC_57, complete genome 1664-1696 5 0.848
NC_011059_2 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT 1536601-1536633 33 NZ_CP016452 Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence 1990534-1990566 7 0.788
NC_011059_2 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR 1537394-1537426 33 MG945587 UNVERIFIED: Microviridae sp. isolate 4069-1801, complete genome 4227-4259 7 0.788
NC_011059_2 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT 1536601-1536633 33 NC_020548 Azoarcus sp. KH32C plasmid pAZKH, complete sequence 608828-608860 8 0.758
NC_011059_2 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT 1536052-1536084 33 LR606148 Rhizobium sp. Q54 genome assembly, plasmid: 5 16291-16323 9 0.727
NC_011059_2 2.4|1536235|33|NC_011059|CRISPRCasFinder,CRT 1536235-1536267 33 LR134132 Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12 82852-82884 9 0.727
NC_011059_2 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT 1536418-1536450 33 NZ_CP039966 Pseudorhodobacter sp. S12M18 plasmid unnamed2, complete sequence 65181-65213 9 0.727
NC_011059_2 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT 1536418-1536450 33 NZ_CP007130 Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence 268432-268464 9 0.727
NC_011059_2 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR 1537272-1537304 33 MN103542 Enterococcus phage vB_EfaS_EF1c55, complete genome 31925-31957 9 0.727
NC_011059_2 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR 1537272-1537304 33 KJ127303 Enterococcus phage VD13, complete genome 22603-22635 9 0.727
NC_011059_2 2.38|1536052|35|NC_011059|PILER-CR 1536052-1536086 35 LR606148 Rhizobium sp. Q54 genome assembly, plasmid: 5 16289-16323 9 0.743
NC_011059_2 2.47|1536601|35|NC_011059|PILER-CR 1536601-1536635 35 NZ_CP016452 Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence 1990532-1990566 9 0.743
NC_011059_3 3.1|1896340|37|NC_011059|CRISPRCasFinder 1896340-1896376 37 MH536819 Gordonia phage Fury, complete genome 62066-62102 9 0.757
NC_011059_3 3.1|1896340|37|NC_011059|CRISPRCasFinder 1896340-1896376 37 MH576960 Gordonia phage Pleakley, complete genome 62067-62103 9 0.757
NC_011059_2 2.2|1536113|33|NC_011059|CRISPRCasFinder,CRT 1536113-1536145 33 KX889068 Vibrio phage pVa5, complete genome 53500-53532 10 0.697
NC_011059_2 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT 1536479-1536511 33 NZ_CP018229 Rhizobium leguminosarum strain Vaf-108 plasmid unnamed1, complete sequence 25277-25309 10 0.697
NC_011059_2 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT 1536479-1536511 33 NZ_CP016290 Rhizobium leguminosarum strain Vaf10 plasmid unnamed3, complete sequence 71850-71882 10 0.697
NC_011059_7 7.3|2189362|34|NC_011059|CRISPRCasFinder,CRT,PILER-CR 2189362-2189395 34 MH884648 Caulobacter phage Kronos, complete genome 22843-22876 10 0.706
NC_011059_2 2.41|1536235|35|NC_011059|PILER-CR 1536235-1536269 35 LR134132 Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12 82850-82884 11 0.686

1. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH617307 (Microviridae sp. isolate ctbd738, complete genome) position: , mismatch: 4, identity: 0.879

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
tgtaaatccttaacctctcgttggtgagcagta	Protospacer
.**********************.*****.**.

2. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH572288 (Microviridae sp. isolate SD_SC_57, complete genome) position: , mismatch: 5, identity: 0.848

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
tttaaatcctcaacctctcgttgatgagcagta	Protospacer
. ********.******************.**.

3. spacer 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP016452 (Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence) position: , mismatch: 7, identity: 0.788

ttggccca---ctgctcgaaatgcgcaacgatgccg	CRISPR spacer
---gcctgaacctgctcgaaatgggcgacgatgccg	Protospacer
   ***..   ************ **.*********

4. spacer 2.23|1537394|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MG945587 (UNVERIFIED: Microviridae sp. isolate 4069-1801, complete genome) position: , mismatch: 7, identity: 0.788

cgtaaatccttaacctctcgttgatgagcggtg	CRISPR spacer
acaagatctttaacctcacgttgatgagcggta	Protospacer
   *.***.******** **************.

5. spacer 2.10|1536601|33|NC_011059|CRISPRCasFinder,CRT matches to NC_020548 (Azoarcus sp. KH32C plasmid pAZKH, complete sequence) position: , mismatch: 8, identity: 0.758

ttggcccactgctcgaaatgcgcaacga-tgccg	CRISPR spacer
aatcccaactgctcgaaatgcgcagcgagcgcc-	Protospacer
    ** *****************.*** .*** 

6. spacer 2.1|1536052|33|NC_011059|CRISPRCasFinder,CRT matches to LR606148 (Rhizobium sp. Q54 genome assembly, plasmid: 5) position: , mismatch: 9, identity: 0.727

tccttccggcgtgacgaaggtgcaggatgggtg	CRISPR spacer
gtcttccggcgtgaccaaggtggaggaaatgac	Protospacer
 .************* ****** **** . *  

7. spacer 2.4|1536235|33|NC_011059|CRISPRCasFinder,CRT matches to LR134132 (Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12) position: , mismatch: 9, identity: 0.727

aatcgcactgatgatgtgaatgggtcttttgag	CRISPR spacer
cggcctgctgatgatgttaatgggtctgttgat	Protospacer
 . * ..********** ********* **** 

8. spacer 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP039966 (Pseudorhodobacter sp. S12M18 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.727

ggaaatagagaccggcagcaggaacgcgcactg	CRISPR spacer
tcagcaacagaccggcagcaggaacaggcactt	Protospacer
  *.  * *****************. ***** 

9. spacer 2.7|1536418|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP007130 (Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence) position: , mismatch: 9, identity: 0.727

ggaaatagagaccggcagcaggaacgcgcactg	CRISPR spacer
cgccgacgggaccggcagcacgaacgcgctctg	Protospacer
 *  .  *.*********** ******** ***

10. spacer 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MN103542 (Enterococcus phage vB_EfaS_EF1c55, complete genome) position: , mismatch: 9, identity: 0.727

gatacaatcaaaacagtcatgctcctcaaactg	CRISPR spacer
gatacaatcaaaacagccatactcccttactac	Protospacer
****************.***.****.. * .  

11. spacer 2.21|1537272|33|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to KJ127303 (Enterococcus phage VD13, complete genome) position: , mismatch: 9, identity: 0.727

gatacaatcaaaacagtcatgctcctcaaactg	CRISPR spacer
gatacaatcaaaacagccatcctcccttactac	Protospacer
****************.*** ****.. * .  

12. spacer 2.38|1536052|35|NC_011059|PILER-CR matches to LR606148 (Rhizobium sp. Q54 genome assembly, plasmid: 5) position: , mismatch: 9, identity: 0.743

tccttccggcgtgacgaaggtgcaggatgggtgag	CRISPR spacer
gtcttccggcgtgaccaaggtggaggaaatgacag	Protospacer
 .************* ****** **** . *  **

13. spacer 2.47|1536601|35|NC_011059|PILER-CR matches to NZ_CP016452 (Sinorhizobium sp. RAC02 plasmid pBSY16_1, complete sequence) position: , mismatch: 9, identity: 0.743

ttggccca---ctgctcgaaatgcgcaacgatgccgga	CRISPR spacer
---gcctgaacctgctcgaaatgggcgacgatgccgcc	Protospacer
   ***..   ************ **.*********  

14. spacer 3.1|1896340|37|NC_011059|CRISPRCasFinder matches to MH536819 (Gordonia phage Fury, complete genome) position: , mismatch: 9, identity: 0.757

gcgtcacgcgtcaccagtcaccgcgcgaagcgctccc	CRISPR spacer
ggcgagcgcgtcagccgtcaccgcgcgaagcgcgcgc	Protospacer
*    .******* * ***************** * *

15. spacer 3.1|1896340|37|NC_011059|CRISPRCasFinder matches to MH576960 (Gordonia phage Pleakley, complete genome) position: , mismatch: 9, identity: 0.757

gcgtcacgcgtcaccagtcaccgcgcgaagcgctccc	CRISPR spacer
ggcgagcgcgtcagccgtcaccgcgcgaagcgcgcgc	Protospacer
*    .******* * ***************** * *

16. spacer 2.2|1536113|33|NC_011059|CRISPRCasFinder,CRT matches to KX889068 (Vibrio phage pVa5, complete genome) position: , mismatch: 10, identity: 0.697

tgtggatcttgctgatcttggtgcttcggggta	CRISPR spacer
ttaggatcttgcttatcttggttcttcatcaag	Protospacer
*  ********** ******** ****.  . .

17. spacer 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP018229 (Rhizobium leguminosarum strain Vaf-108 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.697

agggcaagaatgaaaatggatcgtggccgctgg	CRISPR spacer
gtcgggagaatggaaatggatcatggccgcctc	Protospacer
.  * .******.*********.*******.  

18. spacer 2.8|1536479|33|NC_011059|CRISPRCasFinder,CRT matches to NZ_CP016290 (Rhizobium leguminosarum strain Vaf10 plasmid unnamed3, complete sequence) position: , mismatch: 10, identity: 0.697

agggcaagaatgaaaatggatcgtggccgctgg	CRISPR spacer
gtcgggagaatggaaatggatcatggccgcctc	Protospacer
.  * .******.*********.*******.  

19. spacer 7.3|2189362|34|NC_011059|CRISPRCasFinder,CRT,PILER-CR matches to MH884648 (Caulobacter phage Kronos, complete genome) position: , mismatch: 10, identity: 0.706

ccgcattggcgaacggggctctggaggcggcggc	CRISPR spacer
ggaggtacacgaacgatgctctggaggcggcggc	Protospacer
  . .*  .******. *****************

20. spacer 2.41|1536235|35|NC_011059|PILER-CR matches to LR134132 (Klebsiella aerogenes strain NCTC10006 genome assembly, plasmid: 12) position: , mismatch: 11, identity: 0.686

aatcgcactgatgatgtgaatgggtcttttgagga	CRISPR spacer
cggcctgctgatgatgttaatgggtctgttgattc	Protospacer
 . * ..********** ********* ****   

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 27053 : 83596 48 Mycobacterium_phage(40.0%) transposase,tRNA,protease NA
DBSCAN-SWA_2 659192 : 687758 28 Bacillus_virus(16.67%) integrase,transposase,protease attL 663151:663165|attR 685872:685886
DBSCAN-SWA_3 2274015 : 2328418 57 Streptococcus_phage(25.0%) integrase,transposase,tRNA attL 2294501:2294517|attR 2334053:2334069
DBSCAN-SWA_4 2456558 : 2493804 30 Leptospira_phage(28.57%) integrase,transposase,protease attL 2452652:2452667|attR 2496799:2496814
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage
2. NC_011061
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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
Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 41348 : 49979 9 Microcystis_virus(33.33%) NA NA
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage