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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_AP014623 Pseudomonas chlororaphis subsp. aurantiaca strain StFRB508 4 crisprs WYL,DinG,csa3,cas3,DEDDh 1 8 5 2

Results visualization

1. NZ_AP014623
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_AP014623_1 231940-232041 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_AP014623_2 787853-788601 Orphan I-F
12 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_AP014623_3 3143548-3143641 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_AP014623_4 3686245-3686382 Orphan NA
1 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
NZ_AP014623_2 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788482-788513 32 NZ_AP014623.1 2112585-2112616 2 0.938

1. spacer 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to position: 2112585-2112616, mismatch: 2, identity: 0.938

cattccaggacacggttatgcagacgctcaag	CRISPR spacer
cattcaaggacacggttatgcagacgctccag	Protospacer
***** *********************** **

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
NZ_AP014623_2 2.1|787881|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 787881-787912 32 NC_017958 Tistrella mobilis KA081020-065 plasmid pTM3, complete sequence 55210-55241 7 0.781
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 NZ_CP025552 Streptomyces rimosus strain WT5260 plasmid unnamed, complete sequence 15900-15931 7 0.781
NZ_AP014623_2 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 787941-787972 32 NZ_CP051545 Paracoccus sanguinis strain OM2164 plasmid pPspOM7, complete sequence 4644-4675 8 0.75
NZ_AP014623_2 2.3|788001|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788001-788032 32 NZ_CP004389 Thalassospira xiamenensis M-5 = DSM 17429 strain M-5 plasmid unnamed, complete sequence 135777-135808 8 0.75
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 NZ_CP005085 Sphingobium sp. TKS plasmid pTK1, complete sequence 188332-188363 8 0.75
NZ_AP014623_2 2.6|788182|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788182-788213 32 NZ_CP048110 Klebsiella michiganensis strain BD177 plasmid unnamed2 156769-156800 8 0.75
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 MN096369 Gordonia phage Phendrix, complete genome 110870-110901 8 0.75
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 NZ_CP022417 Sulfitobacter pseudonitzschiae strain SMR1 plasmid pSMR1-2, complete sequence 198576-198607 8 0.75
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 MH834619 Arthrobacter phage Maureen, complete genome 3569-3600 8 0.75
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 GU911304 Burkholderia phage KL3, complete genome 26146-26177 8 0.75
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 NC_048115 Arthrobacter phage Liebe, complete genome 3569-3600 8 0.75
NZ_AP014623_2 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 787941-787972 32 NZ_CP015523 Sphingomonas sp. NIC1 plasmid unnamed2, complete sequence 119969-120000 9 0.719
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 KT997871 Uncultured Mediterranean phage uvDeep-CGR2-AD7-C12, complete genome 12306-12337 9 0.719
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 MN116494 Klebsiella phage vB_KpnP_Bp5, complete genome 24314-24345 9 0.719
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 NC_028664 Klebsiella phage vB_Kp2, complete genome 25251-25282 9 0.719
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 MT682065 Klebsiella virus KpV2883, complete genome 24237-24268 9 0.719
NZ_AP014623_2 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788061-788092 32 NC_047783 Klebsiella phage vB_KpnP_KpV48, complete genome 25532-25563 9 0.719
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 NC_009620 Sinorhizobium medicae WSM419 plasmid pSMED01, complete sequence 947984-948015 9 0.719
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 NZ_CP042332 Bosea sp. F3-2 plasmid pB32-1, complete sequence 213908-213939 9 0.719
NZ_AP014623_2 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788242-788273 32 MK620899 Gordonia phage GodonK, complete genome 112294-112325 9 0.719
NZ_AP014623_2 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788482-788513 32 NC_007974 Cupriavidus metallidurans CH34 megaplasmid, complete sequence 280416-280447 9 0.719
NZ_AP014623_2 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788482-788513 32 NZ_CP046333 Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3 766804-766835 9 0.719
NZ_AP014623_2 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 787941-787972 32 NZ_CP023000 Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-B, complete sequence 247921-247952 10 0.688
NZ_AP014623_2 2.10|788422|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788422-788453 32 NZ_LT960789 Lactobacillus sakei strain MFPB16A1401 plasmid 2, complete sequence 41023-41054 10 0.688
NZ_AP014623_2 2.10|788422|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788422-788453 32 NZ_LT907984 Lactobacillus sakei subsp. sakei 23K plasmid pJ23A1, complete sequence 64444-64475 10 0.688
NZ_AP014623_2 2.3|788001|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT 788001-788032 32 NZ_CP015095 Pelagibaca abyssi strain JLT2014 plasmid pPABY4, complete sequence 93330-93361 11 0.656

1. spacer 2.1|787881|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_017958 (Tistrella mobilis KA081020-065 plasmid pTM3, complete sequence) position: , mismatch: 7, identity: 0.781

ggtcaccgtgatgttcttctccttgaacttgg	CRISPR spacer
gttccttgggatgttcttctcgttgagcttgg	Protospacer
* ** ..* ************ ****.*****

2. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP025552 (Streptomyces rimosus strain WT5260 plasmid unnamed, complete sequence) position: , mismatch: 7, identity: 0.781

---aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
tcgaaca---cgccctgggcgccctggccaccgac	Protospacer
   ****   **.***************** **. 

3. spacer 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP051545 (Paracoccus sanguinis strain OM2164 plasmid pPspOM7, complete sequence) position: , mismatch: 8, identity: 0.75

aaactgttgaaccggctggaggccaacctcga---	CRISPR spacer
gaactgtggaaccgggtggaggccg---ccgagac	Protospacer
.****** ******* ********.   .***   

4. spacer 2.3|788001|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP004389 (Thalassospira xiamenensis M-5 = DSM 17429 strain M-5 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.75

agtcggcgccggtaccaagaaagtcgtcatcg	CRISPR spacer
actggttgccggtagcaagaaagacgtcatga	Protospacer
* * * .******* ******** ****** .

5. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP005085 (Sphingobium sp. TKS plasmid pTK1, complete sequence) position: , mismatch: 8, identity: 0.75

tggcggtagtcgtaccaggaaccgccctccag	CRISPR spacer
cgcaggccgtcgtaccaggaatagccctccat	Protospacer
.*  **. *************. ******** 

6. spacer 2.6|788182|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP048110 (Klebsiella michiganensis strain BD177 plasmid unnamed2) position: , mismatch: 8, identity: 0.75

tcactgttcgggtcatcgatccgagccgtcaa	CRISPR spacer
tggccgggcggctcatcgatcggagccgtcac	Protospacer
* .*.*  *** ********* ********* 

7. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to MN096369 (Gordonia phage Phendrix, complete genome) position: , mismatch: 8, identity: 0.75

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
aacccgtcgtcctgggcgtcctggttttcgct	Protospacer
*** **************.*****..  **  

8. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP022417 (Sulfitobacter pseudonitzschiae strain SMR1 plasmid pSMR1-2, complete sequence) position: , mismatch: 8, identity: 0.75

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
aacacgtcgacctcggcgccctgttcgaccgc	Protospacer
********* *** ********* .*..* * 

9. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to MH834619 (Arthrobacter phage Maureen, complete genome) position: , mismatch: 8, identity: 0.75

-aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
cgacg-gacgtcctgggcgccctggtcggcgac	Protospacer
 .**. * *****************.*.***. 

10. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to GU911304 (Burkholderia phage KL3, complete genome) position: , mismatch: 8, identity: 0.75

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
agtacgtcgtcctgggcgccgcggccgccgtt	Protospacer
*..***************** .****. **  

11. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_048115 (Arthrobacter phage Liebe, complete genome) position: , mismatch: 8, identity: 0.75

-aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
cgacg-gacgtcctgggcgccctggtcggcgac	Protospacer
 .**. * *****************.*.***. 

12. spacer 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP015523 (Sphingomonas sp. NIC1 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

aaactgttgaaccggctggaggccaacctcga	CRISPR spacer
gtccggctgaagcggctggtggccaacctcag	Protospacer
.  * *.**** ******* **********..

13. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to KT997871 (Uncultured Mediterranean phage uvDeep-CGR2-AD7-C12, complete genome) position: , mismatch: 9, identity: 0.719

tggcggtagtcgtaccaggaaccgc-----cctccag	CRISPR spacer
aggcggttgtcgtaccaggaagcgtgggtgcc-----	Protospacer
 ****** ************* **.     **     

14. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to MN116494 (Klebsiella phage vB_KpnP_Bp5, complete genome) position: , mismatch: 9, identity: 0.719

tggcggtagtcgtaccaggaacc------gccctccag	CRISPR spacer
tggcggtagtggtacccggaaccaggatagct------	Protospacer
********** ***** ******      **.      

15. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_028664 (Klebsiella phage vB_Kp2, complete genome) position: , mismatch: 9, identity: 0.719

tggcggtagtcgtaccaggaacc------gccctccag	CRISPR spacer
tggcggtagtggtacccggaaccaggatagct------	Protospacer
********** ***** ******      **.      

16. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to MT682065 (Klebsiella virus KpV2883, complete genome) position: , mismatch: 9, identity: 0.719

tggcggtagtcgtaccaggaacc------gccctccag	CRISPR spacer
tggcggtagtggtacccggaaccaggatagct------	Protospacer
********** ***** ******      **.      

17. spacer 2.4|788061|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_047783 (Klebsiella phage vB_KpnP_KpV48, complete genome) position: , mismatch: 9, identity: 0.719

tggcggtagtcgtaccaggaacc------gccctccag	CRISPR spacer
tggcggtagtggtacccggaaccaggatagct------	Protospacer
********** ***** ******      **.      

18. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_009620 (Sinorhizobium medicae WSM419 plasmid pSMED01, complete sequence) position: , mismatch: 9, identity: 0.719

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
gccacgtcgtccttggcgccctggcaggtctc	Protospacer
. *********** *********** .*.   

19. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP042332 (Bosea sp. F3-2 plasmid pB32-1, complete sequence) position: , mismatch: 9, identity: 0.719

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
caccgctcctccagggcgccctggccagcctc	Protospacer
 **   ** *** ****************   

20. spacer 2.7|788242|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to MK620899 (Gordonia phage GodonK, complete genome) position: , mismatch: 9, identity: 0.719

aacacgtcgtcctgggcgccctggccagcgga	CRISPR spacer
aacccgtcgtcctgggcgtcctgattttctgc	Protospacer
*** **************.****...  * * 

21. spacer 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NC_007974 (Cupriavidus metallidurans CH34 megaplasmid, complete sequence) position: , mismatch: 9, identity: 0.719

cattccaggacacggttatgcagacgctcaag	CRISPR spacer
aggcgcaggacacggtcatgcagacgctggtg	Protospacer
 . . ***********.*********** . *

22. spacer 2.11|788482|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP046333 (Cupriavidus metallidurans strain FDAARGOS_675 plasmid unnamed3) position: , mismatch: 9, identity: 0.719

cattccaggacacggttatgcagacgctcaag	CRISPR spacer
aggcgcaggacacggtcatgcagacgctggtg	Protospacer
 . . ***********.*********** . *

23. spacer 2.2|787941|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP023000 (Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-B, complete sequence) position: , mismatch: 10, identity: 0.688

aaactgttgaaccggctggaggccaacctcga	CRISPR spacer
gctgcgttgaactggctggaggccaagctttc	Protospacer
.   .*******.************* **.  

24. spacer 2.10|788422|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LT960789 (Lactobacillus sakei strain MFPB16A1401 plasmid 2, complete sequence) position: , mismatch: 10, identity: 0.688

tgggcttctacgttgccaaaaccaccatgatc	CRISPR spacer
aaaacttctatgttgcctaaaccaccatacca	Protospacer
 ...******.****** **********. . 

25. spacer 2.10|788422|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_LT907984 (Lactobacillus sakei subsp. sakei 23K plasmid pJ23A1, complete sequence) position: , mismatch: 10, identity: 0.688

tgggcttctacgttgccaaaaccaccatgatc	CRISPR spacer
aaaacttctatgttgcctaaaccaccatacca	Protospacer
 ...******.****** **********. . 

26. spacer 2.3|788001|32|NZ_AP014623|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP015095 (Pelagibaca abyssi strain JLT2014 plasmid pPABY4, complete sequence) position: , mismatch: 11, identity: 0.656

agtcggcgccggtaccaagaaagtcgtcatcg	CRISPR spacer
caaaatgaccggtatcaagaaagtcgccatct	Protospacer
 .  .  .******.***********.**** 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 1114238 : 1222443 106 Pseudomonas_phage(42.59%) lysis,protease,tail,tRNA,holin,plate NA
DBSCAN-SWA_2 2043473 : 2172972 168 uncultured_Caudovirales_phage(44.44%) capsid,tail,tRNA,head,bacteriocin,plate,transposase NA
DBSCAN-SWA_3 4255828 : 4262087 8 uncultured_Caudovirales_phage(83.33%) tRNA NA
DBSCAN-SWA_4 6132710 : 6173328 43 Pseudomonas_phage(76.47%) terminase,capsid,lysis,tail,tRNA,head,integrase,portal,plate attL 6123429:6123446|attR 6183306:6183323
DBSCAN-SWA_5 6231271 : 6282722 43 Burkholderia_phage(25.0%) holin,protease NA
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Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage
NZ_AP014623.1|WP_096373586.1|2119489_2119699_+|hypothetical-protein 2119489_2119699_+ 69 aa aa NA NA NA 2043473-2172972 yes
NZ_AP014623.1|WP_096373587.1|2119736_2119967_+|hypothetical-protein 2119736_2119967_+ 76 aa aa NA NA NA 2043473-2172972 yes