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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
CP029001 Trueperella pyogenes strain TP4479 chromosome, complete genome 1 crisprs cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3,csa3,DEDDh,cas4,WYL,DinG 0 12 2 0

Results visualization

1. CP029001
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
CP029001_1 436367-439628 TypeI-E I-E
53 spacers
cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3

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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
CP029001_1 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438591-438623 33 NC_048095 Arthrobacter phage Judy, complete genome 38307-38339 3 0.909
CP029001_1 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 436761-436793 33 FR687252 Pantoea phage LIMElight complete genome 26680-26712 7 0.788
CP029001_1 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 436761-436793 33 NC_019454 Pantoea phage LIMElight, complete genome 26680-26712 7 0.788
CP029001_1 1.19|437493|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437493-437525 33 MT276994 Aeromonas phage AhyVDH1, complete genome 21170-21202 7 0.788
CP029001_1 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437920-437952 33 NZ_CP016287 Rhizobium leguminosarum strain Vaf10 plasmid unnamed1, complete sequence 1021995-1022027 7 0.788
CP029001_1 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437920-437952 33 NZ_CP042276 Agrobacterium tumefaciens strain 186 plasmid pAt, complete sequence 284282-284314 7 0.788
CP029001_1 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437920-437952 33 NC_009620 Sinorhizobium medicae WSM419 plasmid pSMED01, complete sequence 138954-138986 7 0.788
CP029001_1 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438042-438074 33 NZ_CP025075 [Bacillus] caldolyticus strain NEB414 plasmid pBcl1, complete sequence 15045-15077 7 0.788
CP029001_1 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438042-438074 33 NC_014916 Geobacillus sp. Y412MC52 plasmid pGYMC5201, complete sequence 3412-3444 7 0.788
CP029001_1 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438042-438074 33 NC_013412 Geobacillus sp. Y412MC61, complete sequence 28231-28263 7 0.788
CP029001_1 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438591-438623 33 NZ_LN831789 Streptomyces leeuwenhoekii strain type strain (C34 = DSM 42122 = NRRL B-24963) plasmid pSLE2 68652-68684 7 0.788
CP029001_1 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 436761-436793 33 NZ_CP010858 Marinovum algicola DG 898 plasmid pMaD3 5363-5395 8 0.758
CP029001_1 1.11|437005|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437005-437037 33 NZ_CP025613 Niveispirillum cyanobacteriorum strain TH16 plasmid unnamed1, complete sequence 834645-834677 8 0.758
CP029001_1 1.25|437859|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437859-437891 33 NZ_LR594691 Variovorax sp. WDL1 plasmid 3 224892-224924 8 0.758
CP029001_1 1.53|439567|34|CP029001|CRISPRCasFinder,CRT,PILER-CR 439567-439600 34 MH617500 Microviridae sp. isolate ctgf627, complete genome 2618-2651 8 0.765
CP029001_1 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437188-437220 33 NZ_CP015739 Shinella sp. HZN7 plasmid pShin-03, complete sequence 74094-74126 9 0.727
CP029001_1 1.19|437493|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437493-437525 33 NZ_CP030354 Novosphingobium sp. P6W plasmid pP6W1, complete sequence 239616-239648 9 0.727
CP029001_1 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438591-438623 33 NC_010510 Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01, complete sequence 275013-275045 9 0.727
CP029001_1 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437188-437220 33 MN585994 Mycobacterium phage SheaKeira, complete genome 1260-1292 10 0.697
CP029001_1 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437188-437220 33 NC_048859 Bifidobacterium phage BadAargau2, complete genome 5732-5764 10 0.697
CP029001_1 1.17|437371|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437371-437403 33 NZ_CP016617 Microvirga ossetica strain V5/3m plasmid unnamed1, complete sequence 6270-6302 10 0.697
CP029001_1 1.17|437371|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437371-437403 33 NZ_CP029177 Acidibrevibacterium fodinaquatile strain G45-3 plasmid unnamed1, complete sequence 43647-43679 10 0.697
CP029001_1 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 437920-437952 33 NZ_CP007130 Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence 1019120-1019152 10 0.697
CP029001_1 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438652-438684 33 NC_007410 Trichormus variabilis ATCC 29413 plasmid A, complete sequence 81504-81536 10 0.697
CP029001_1 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438652-438684 33 NC_007412 Trichormus variabilis ATCC 29413 plasmid C, complete sequence 230194-230226 10 0.697
CP029001_1 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 438652-438684 33 NZ_CP047243 Trichormus variabilis 0441 plasmid unnamed1, complete sequence 91551-91583 10 0.697
CP029001_1 1.44|439018|33|CP029001|CRISPRCasFinder,CRT,PILER-CR 439018-439050 33 NZ_CP011481 Hoeflea sp. IMCC20628 plasmid, complete sequence 4050-4082 10 0.697

1. spacer 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_048095 (Arthrobacter phage Judy, complete genome) position: , mismatch: 3, identity: 0.909

agagggcgtaggccgcgaacttggtgtacgggg	CRISPR spacer
ggagggcgtaggcgccgaacttggtgtacgggg	Protospacer
.************  ******************

2. spacer 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to FR687252 (Pantoea phage LIMElight complete genome) position: , mismatch: 7, identity: 0.788

acgccggtcgcggtaatcgtctgctcgatcccg	CRISPR spacer
tcggcggtcggggtaatcgtctgctctaccgtg	Protospacer
 ** ****** *************** *.* .*

3. spacer 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_019454 (Pantoea phage LIMElight, complete genome) position: , mismatch: 7, identity: 0.788

acgccggtcgcggtaatcgtctgctcgatcccg	CRISPR spacer
tcggcggtcggggtaatcgtctgctctaccgtg	Protospacer
 ** ****** *************** *.* .*

4. spacer 1.19|437493|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to MT276994 (Aeromonas phage AhyVDH1, complete genome) position: , mismatch: 7, identity: 0.788

cgggtcggcgtgagcctgcccggccactaccgg	CRISPR spacer
cagataagcctgagcctgcccggcctctaccgc	Protospacer
*.*.* .** *************** ****** 

5. spacer 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP016287 (Rhizobium leguminosarum strain Vaf10 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.788

cggtgagaacggtaacgagcgcgccgagcgcgg	CRISPR spacer
tgctgagaacgatatcgagcgcgccgagcgtat	Protospacer
.* ********.** ***************.. 

6. spacer 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP042276 (Agrobacterium tumefaciens strain 186 plasmid pAt, complete sequence) position: , mismatch: 7, identity: 0.788

-cggtgagaacggtaacgagcgcgccgagcgcgg	CRISPR spacer
ccagtg-ctgcggtgacgagcgccccgagcgcgg	Protospacer
 *.***   .****.******** **********

7. spacer 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_009620 (Sinorhizobium medicae WSM419 plasmid pSMED01, complete sequence) position: , mismatch: 7, identity: 0.788

cggtgagaacggtaacgagcgcgccgagcgcgg	CRISPR spacer
cgatcaccgcggcaacgaccgcgccgagcgcgg	Protospacer
**.* *  .***.***** **************

8. spacer 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP025075 ([Bacillus] caldolyticus strain NEB414 plasmid pBcl1, complete sequence) position: , mismatch: 7, identity: 0.788

cctgcgaa--ggcaggggttttcaccctagacgag	CRISPR spacer
--ggccaagtggaaagggttttcaccctagacgaa	Protospacer
   ** **  ** *.*******************.

9. spacer 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_014916 (Geobacillus sp. Y412MC52 plasmid pGYMC5201, complete sequence) position: , mismatch: 7, identity: 0.788

cctgcgaa--ggcaggggttttcaccctagacgag	CRISPR spacer
--ggccaagtggaaagggttttcaccctagacgaa	Protospacer
   ** **  ** *.*******************.

10. spacer 1.28|438042|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_013412 (Geobacillus sp. Y412MC61, complete sequence) position: , mismatch: 7, identity: 0.788

cctgcgaa--ggcaggggttttcaccctagacgag	CRISPR spacer
--ggccaagtggaaagggttttcaccctagacgaa	Protospacer
   ** **  ** *.*******************.

11. spacer 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LN831789 (Streptomyces leeuwenhoekii strain type strain (C34 = DSM 42122 = NRRL B-24963) plasmid pSLE2) position: , mismatch: 7, identity: 0.788

agagggcgtaggccgcgaacttggtgtacgggg	CRISPR spacer
agagggcggaggccgcgagcttggcggtccggc	Protospacer
******** *********.*****.*  * ** 

12. spacer 1.7|436761|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP010858 (Marinovum algicola DG 898 plasmid pMaD3) position: , mismatch: 8, identity: 0.758

acgccggtcgcggtaatcgtctgctcgatcccg	CRISPR spacer
gcgacccaagcggtcatcgtctgcgcgatcccg	Protospacer
.** *    ***** ********* ********

13. spacer 1.11|437005|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP025613 (Niveispirillum cyanobacteriorum strain TH16 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.758

gtcatccaccaccgtcacgatacccggcatggc	CRISPR spacer
gatgatgaccgccgtcatgatacccggcatggc	Protospacer
* .. . ***.******.***************

14. spacer 1.25|437859|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_LR594691 (Variovorax sp. WDL1 plasmid 3) position: , mismatch: 8, identity: 0.758

gtttccggcgtgtggtcggtgggctgggcgctg	CRISPR spacer
ctacgccgcgtgtgatcggtcggctgggcgccg	Protospacer
 * . * *******.***** **********.*

15. spacer 1.53|439567|34|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to MH617500 (Microviridae sp. isolate ctgf627, complete genome) position: , mismatch: 8, identity: 0.765

tgtggcgccagtggaggttggtggtgccacatgt-	CRISPR spacer
ggtggcgccactggaggttggtgatg-gataagcg	Protospacer
 ********* ************.**  *.* *. 

16. spacer 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP015739 (Shinella sp. HZN7 plasmid pShin-03, complete sequence) position: , mismatch: 9, identity: 0.727

ccggtatcggccttgatctgtgccgtcacacgc	CRISPR spacer
tcggtatcggccctggtctgtgccgtgcttttc	Protospacer
.***********.**.**********  . . *

17. spacer 1.19|437493|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP030354 (Novosphingobium sp. P6W plasmid pP6W1, complete sequence) position: , mismatch: 9, identity: 0.727

cgggtcggcgtgagcctgcccggccactaccgg	CRISPR spacer
atcgtcggcgtgcgcctgaccggccaccgcaag	Protospacer
   ********* ***** ********..* .*

18. spacer 1.37|438591|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_010510 (Methylobacterium radiotolerans JCM 2831 plasmid pMRAD01, complete sequence) position: , mismatch: 9, identity: 0.727

agagggcgtaggccgcgaacttggtgtacgggg	CRISPR spacer
cgagggcgaaggccgcgaccttggtgcggtaga	Protospacer
 ******* ********* *******..  .*.

19. spacer 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to MN585994 (Mycobacterium phage SheaKeira, complete genome) position: , mismatch: 10, identity: 0.697

ccggtatcggccttgatctgtgccgtcacacgc	CRISPR spacer
tcggtatcggtcttgatctgtgtcggcgtcgag	Protospacer
.*********.***********.** *..  . 

20. spacer 1.14|437188|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_048859 (Bifidobacterium phage BadAargau2, complete genome) position: , mismatch: 10, identity: 0.697

ccggtatcggccttgatctgtgccgtcacacgc	CRISPR spacer
gcggtgtcggccttggtctgtgccgacttggct	Protospacer
 ****.*********.********* * ..  .

21. spacer 1.17|437371|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP016617 (Microvirga ossetica strain V5/3m plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.697

ctgtcctattcgggtggcgggatcaaggtcgcg	CRISPR spacer
agccgcaattcggatggcgggttcaaggtcgtt	Protospacer
   . * ******.******* *********. 

22. spacer 1.17|437371|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP029177 (Acidibrevibacterium fodinaquatile strain G45-3 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.697

ctgtcctattcgggtggcgggatcaaggtcgcg	CRISPR spacer
gatatcaatgcgggtggcgggatcaagggcggt	Protospacer
    .* ** ****************** **  

23. spacer 1.26|437920|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP007130 (Gemmatirosa kalamazoonesis strain KBS708 plasmid 2, complete sequence) position: , mismatch: 10, identity: 0.697

cggtgagaacggtaacgagcgcgccgagcgcgg	CRISPR spacer
tgccccacacggcgacgagcgcgccgagcgcgc	Protospacer
.* .  . ****..****************** 

24. spacer 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_007410 (Trichormus variabilis ATCC 29413 plasmid A, complete sequence) position: , mismatch: 10, identity: 0.697

gtacgaagcctactggcaaggagaagaaccgtg	CRISPR spacer
tgaaacagcctcctggcaaggagaaaaacctca	Protospacer
  * . ***** *************.**** ..

25. spacer 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NC_007412 (Trichormus variabilis ATCC 29413 plasmid C, complete sequence) position: , mismatch: 10, identity: 0.697

gtacgaagcctactggcaaggagaagaaccgtg	CRISPR spacer
tgaaacagcctcctggcaaggagaaaaacctca	Protospacer
  * . ***** *************.**** ..

26. spacer 1.38|438652|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP047243 (Trichormus variabilis 0441 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.697

gtacgaagcctactggcaaggagaagaaccgtg	CRISPR spacer
tgaaacagcctcctggcaaggagaaaaacctca	Protospacer
  * . ***** *************.**** ..

27. spacer 1.44|439018|33|CP029001|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP011481 (Hoeflea sp. IMCC20628 plasmid, complete sequence) position: , mismatch: 10, identity: 0.697

aagccgaccgcgtacagcaccaccttcgagacc	CRISPR spacer
aagccgaccgcgaacagcaccgccaccagcgtt	Protospacer
************ ********.** .*.. ...

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 568216 : 665302 90 Erysipelothrix_phage(41.67%) transposase,head,tRNA,protease,terminase,holin,tail,portal,capsid NA
DBSCAN-SWA_2 1615487 : 1629393 13 Synechococcus_phage(22.22%) NA NA
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage