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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
LR134160 Yersinia pseudotuberculosis strain NCTC8480 genome assembly, chromosome: 1 9 crisprs csa3,DinG,DEDDh,cas3,cas6f,cas7f,cas5f,cas8f,cas3f,cas1 0 9 4 0

Results visualization

1. LR134160
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_1 154895-154993 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_2 1061831-1061914 Orphan I-F
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_3 1543752-1543873 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_4 1668003-1669057 Orphan I-F
17 spacers
DEDDh

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_6 2659905-2660232 TypeI-F I-F
5 spacers
cas1,cas3f,cas8f,cas5f,cas7f,cas6f

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_7 2852194-2852305 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_9 3717268-3717347 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_10 4476165-4476253 Orphan NA
1 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134160_11 4582005-4582117 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
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP028488 Yersinia massiliensis strain GTA plasmid unnamed1, complete sequence 94279-94314 4 0.889
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP054046 Yersinia massiliensis strain 2011N-4075 plasmid unnamed1, complete sequence 5758-5793 6 0.833
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP032488 Yersinia hibernica strain CFS1934 plasmid pCFS1934, complete sequence 55932-55967 6 0.833
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP032236 Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence 10438-10473 6 0.833
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP025802 Yersinia ruckeri strain SC09 plasmid pLT, complete sequence 50213-50248 6 0.833
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_CP054047 Yersinia massiliensis strain 2011N-4075 plasmid unnamed2, complete sequence 45314-45349 6 0.833
LR134160_2 2.1|1061855|36|LR134160|CRISPRCasFinder 1061855-1061890 36 NZ_LN681230 Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence 40349-40384 6 0.833
LR134160_4 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668817-1668848 32 NZ_CP037433 Lactobacillus plantarum strain EM plasmid pEM4, complete sequence 16919-16950 6 0.812
LR134160_4 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668817-1668848 32 NZ_CP037433 Lactobacillus plantarum strain EM plasmid pEM4, complete sequence 35450-35481 6 0.812
LR134160_4 4.10|1668454|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668454-1668485 32 NZ_CP048628 Megamonas funiformis strain JCM 14723 plasmid putative_Mfuni1, complete sequence 43858-43889 7 0.781
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 NZ_CP018742 Bacillus cereus strain FORC_047 plasmid pFORC47_2, complete sequence 160965-160996 7 0.781
LR134160_4 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668817-1668848 32 NZ_CP009710 Yersinia pseudotuberculosis IP 32953 strain IP32953 plasmid pYAC_2, complete sequence 14677-14708 7 0.781
LR134160_4 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668817-1668848 32 NC_006154 Yersinia pseudotuberculosis IP 32953 plasmid pYptb32953, complete sequence 7733-7764 7 0.781
LR134160_4 4.18|1668938|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668938-1668969 32 NC_011368 Rhizobium leguminosarum bv. trifolii WSM2304 plasmid pRLG201, complete sequence 270051-270082 7 0.781
LR134160_4 4.18|1668938|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668938-1668969 32 NC_020062 Rhizobium tropici CIAT 899 plasmid pRtrCIAT899c, complete sequence 1676974-1677005 7 0.781
LR134160_1 1.1|154928|33|LR134160|CRISPRCasFinder 154928-154960 33 NZ_KX274135 Staphylococcus arlettae strain SA-01 plasmid pSA-01, complete sequence 60674-60706 8 0.758
LR134160_4 4.5|1668153|33|LR134160|CRISPRCasFinder,CRT 1668153-1668185 33 NZ_CP049244 Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence 555749-555781 8 0.758
LR134160_6 6.5|2660173|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 2660173-2660204 32 NZ_CP054613 Paenibacillus cellulosilyticus strain KACC 14175 plasmid unnamed4, complete sequence 729435-729466 8 0.75
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 NZ_CP028373 Campylobacter jejuni subsp. jejuni strain huA17 plasmid unnamed1, complete sequence 40985-41016 9 0.719
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 NZ_CP018901 Campylobacter coli strain YH502 plasmid pCOS502, complete sequence 49228-49259 9 0.719
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 NZ_CP014345 Campylobacter jejuni strain RM3194 plasmid unnamed, complete sequence 19288-19319 9 0.719
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 NZ_CP048772 Campylobacter jejuni strain ZS007 plasmid pCJ145K, complete sequence 31830-31861 9 0.719
LR134160_4 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 1668695-1668726 32 AP013580 Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C16-MedDCM-OCT-S43-C44, *** SEQUENCING IN PROGRESS *** 16672-16703 9 0.719
LR134160_6 6.2|2659993|32|LR134160|CRISPRCasFinder,CRT,PILER-CR 2659993-2660024 32 NZ_CP032703 Pantoea dispersa strain DSM 32899 plasmid unnamed1, complete sequence 47746-47777 9 0.719

1. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP028488 (Yersinia massiliensis strain GTA plasmid unnamed1, complete sequence) position: , mismatch: 4, identity: 0.889

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggccaagccaatgacggatctcttcaacggcaatgc	Protospacer
*.  *******.************************

2. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP054046 (Yersinia massiliensis strain 2011N-4075 plasmid unnamed1, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggcccagccaatggcggatctcttcaacggcaatgc	Protospacer
*.   ******.*.**********************

3. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP032488 (Yersinia hibernica strain CFS1934 plasmid pCFS1934, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggcccagccaatggcggatctcttcaacggcaatgc	Protospacer
*.   ******.*.**********************

4. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP032236 (Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggccaagccaatgacggatctcttcaacggcgatcc	Protospacer
*.  *******.*******************.** *

5. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP025802 (Yersinia ruckeri strain SC09 plasmid pLT, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggccaagccaatgacggatctcttcaacggcgatcc	Protospacer
*.  *******.*******************.** *

6. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_CP054047 (Yersinia massiliensis strain 2011N-4075 plasmid unnamed2, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggccaagccaatgacggatctcttcaacagcaatac	Protospacer
*.  *******.****************.*****.*

7. spacer 2.1|1061855|36|LR134160|CRISPRCasFinder matches to NZ_LN681230 (Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence) position: , mismatch: 6, identity: 0.833

gaaaaagccaacgacggatctcttcaacggcaatgc	CRISPR spacer
ggccaagccaatgacggatctcttcaacggcgatcc	Protospacer
*.  *******.*******************.** *

8. spacer 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP037433 (Lactobacillus plantarum strain EM plasmid pEM4, complete sequence) position: , mismatch: 6, identity: 0.812

aacaacgccgcagacgcaaccag---tgccaatac	CRISPR spacer
aagaacgccgcatacgcaaccagaattgcaaa---	Protospacer
** ********* **********   *** **   

9. spacer 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP037433 (Lactobacillus plantarum strain EM plasmid pEM4, complete sequence) position: , mismatch: 6, identity: 0.812

aacaacgccgcagacgcaaccag---tgccaatac	CRISPR spacer
aagaacgccgcatacgcaaccagaattgcaaa---	Protospacer
** ********* **********   *** **   

10. spacer 4.10|1668454|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP048628 (Megamonas funiformis strain JCM 14723 plasmid putative_Mfuni1, complete sequence) position: , mismatch: 7, identity: 0.781

ggttg--ccacaaagtattcaaccagccatttta	CRISPR spacer
--ttgatgcacaaagtattcaacgagacattaaa	Protospacer
  ***   *************** ** ****  *

11. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP018742 (Bacillus cereus strain FORC_047 plasmid pFORC47_2, complete sequence) position: , mismatch: 7, identity: 0.781

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
ttttttaaacatatttaaatcaatagctgcat	Protospacer
 *.****************** ** ***.  *

12. spacer 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP009710 (Yersinia pseudotuberculosis IP 32953 strain IP32953 plasmid pYAC_2, complete sequence) position: , mismatch: 7, identity: 0.781

aacaacgccgcagacgcaaccagtgccaatac	CRISPR spacer
gccgcagacgcagacgcaaccagtgctaatac	Protospacer
. *.  * ******************.*****

13. spacer 4.16|1668817|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NC_006154 (Yersinia pseudotuberculosis IP 32953 plasmid pYptb32953, complete sequence) position: , mismatch: 7, identity: 0.781

aacaacgccgcagacgcaaccagtgccaatac	CRISPR spacer
gccgcagacgcagacgcaaccagtgctaatac	Protospacer
. *.  * ******************.*****

14. spacer 4.18|1668938|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NC_011368 (Rhizobium leguminosarum bv. trifolii WSM2304 plasmid pRLG201, complete sequence) position: , mismatch: 7, identity: 0.781

tcaaaaacctgatggcagtggcccggcaatat	CRISPR spacer
tcggcttcctgatggcagtcgccaggcaatat	Protospacer
**..   ************ *** ********

15. spacer 4.18|1668938|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NC_020062 (Rhizobium tropici CIAT 899 plasmid pRtrCIAT899c, complete sequence) position: , mismatch: 7, identity: 0.781

tcaaaaacctgatggcagtggcccggcaatat	CRISPR spacer
tcggtttcctgatggcggtggcccggcagtat	Protospacer
**..   *********.***********.***

16. spacer 1.1|154928|33|LR134160|CRISPRCasFinder matches to NZ_KX274135 (Staphylococcus arlettae strain SA-01 plasmid pSA-01, complete sequence) position: , mismatch: 8, identity: 0.758

attacgcgttttactgataaccccatgccaaag	CRISPR spacer
aaaaatcgttttgctgataacctcatgccattg	Protospacer
*  *  ******.*********.*******  *

17. spacer 4.5|1668153|33|LR134160|CRISPRCasFinder,CRT matches to NZ_CP049244 (Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence) position: , mismatch: 8, identity: 0.758

ccaccgcagacgaccagctcgtccgtgtcgtga	CRISPR spacer
ccaccgtagacgaccagctcgtgcgggcgctcg	Protospacer
******.*************** ** *.  * .

18. spacer 6.5|2660173|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP054613 (Paenibacillus cellulosilyticus strain KACC 14175 plasmid unnamed4, complete sequence) position: , mismatch: 8, identity: 0.75

caagaaaatgctgcgatggctgacccagttca	CRISPR spacer
cggataaatgctgcggtggctgacccaggacg	Protospacer
*... **********.************  *.

19. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP028373 (Campylobacter jejuni subsp. jejuni strain huA17 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.719

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
aaacaaacacttatctaaatctattgctaatg	Protospacer
*  .  * ** ***.**************** 

20. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP018901 (Campylobacter coli strain YH502 plasmid pCOS502, complete sequence) position: , mismatch: 9, identity: 0.719

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
aaacaaacacttatctaaatctattgctaatg	Protospacer
*  .  * ** ***.**************** 

21. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP014345 (Campylobacter jejuni strain RM3194 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.719

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
aaacaaacacttatctaaatctattgctaatg	Protospacer
*  .  * ** ***.**************** 

22. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP048772 (Campylobacter jejuni strain ZS007 plasmid pCJ145K, complete sequence) position: , mismatch: 9, identity: 0.719

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
aaacaaacacttatctaaatctattgctaatg	Protospacer
*  .  * ** ***.**************** 

23. spacer 4.14|1668695|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to AP013580 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C16-MedDCM-OCT-S43-C44, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 9, identity: 0.719

atctttaaacatatttaaatctattgctaatt	CRISPR spacer
tccaattaaaataattaaatctattgctaaaa	Protospacer
 .*  * ** *** ****************  

24. spacer 6.2|2659993|32|LR134160|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP032703 (Pantoea dispersa strain DSM 32899 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.719

tagagtgttttttctgacgatgttccttgctg	CRISPR spacer
cagagtgttttttctgccgacgttctgctttc	Protospacer
.*************** ***.****. . .* 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 1293291 : 1314351 24 Escherichia_phage(20.0%) tail,coat,plate,protease NA
DBSCAN-SWA_2 1878504 : 1927282 69 Salmonella_phage(42.86%) terminase,integrase,holin,transposase,portal,tail,plate,capsid attL 1899616:1899630|attR 1915925:1915939
DBSCAN-SWA_3 3713421 : 3752727 44 Cronobacter_phage(71.88%) terminase,integrase,holin,tRNA,portal,tail,head,capsid attL 3723099:3723147|attR 3751834:3751882
DBSCAN-SWA_4 4331375 : 4369389 35 Enterobacteria_phage(30.0%) transposase,integrase attL 4338549:4338564|attR 4352306:4352321
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage