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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_LT706985 Propionimicrobium sp. Marseille-P3275 strain Marseille-P3275T chromosome contig00001 5 crisprs DinG,DEDDh,csa3,WYL,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3,cas9 0 8 2 0

Results visualization

1. NZ_LT706985
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_LT706985_1 106810-106941 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_LT706985_2 1067077-1067216 Orphan NA
2 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_LT706985_3 1239650-1239728 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_LT706985_4 1645022-1647633 TypeI-E NA
43 spacers
cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_LT706985_5 1789546-1790221 TypeII NA
10 spacers
cas2,cas1,cas9

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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
NZ_LT706985_5 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT 1789710-1789737 28 NC_006362 Nocardia farcinica IFM 10152 plasmid pNF1, complete sequence 74275-74302 4 0.857
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 MT188704 Mesorhizobium phage Cp1R7A-A1, complete genome 79617-79644 5 0.821
NZ_LT706985_5 5.7|1789838|28|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1789838-1789865 28 NC_005241 Cupriavidus necator H16 megaplasmid pHG1, complete sequence 397715-397742 5 0.821
NZ_LT706985_5 5.7|1789838|28|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1789838-1789865 28 NZ_CP039289 Cupriavidus necator H16 plasmid pHG1, complete sequence 397714-397741 5 0.821
NZ_LT706985_4 4.18|1646072|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1646072-1646104 33 KX397365 Erwinia phage vB_EamM_Caitlin, complete genome 183972-184004 6 0.818
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_CP025013 Rhizobium leguminosarum strain Norway plasmid pRLN1, complete sequence 613855-613882 6 0.786
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NC_015583 Novosphingobium sp. PP1Y plasmid Mpl, complete sequence 43875-43902 6 0.786
NZ_LT706985_5 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT 1789710-1789737 28 NZ_CP048283 Rhizobium leguminosarum bv. viciae 248 plasmid pRle248c, complete sequence 231747-231774 7 0.75
NZ_LT706985_5 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT 1789710-1789737 28 NZ_CP035710 Sphaerotilus natans subsp. sulfidivorans strain D-507 plasmid pSna507_unt10, complete sequence 156068-156095 7 0.75
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_CP021372 Rhizobium sp. ACO-34A plasmid pRACO34Ad, complete sequence 151808-151835 7 0.75
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_CP013105 Paraburkholderia caribensis strain MWAP64 plasmid 2, complete sequence 158495-158522 7 0.75
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_AP022593 Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence 1589811-1589838 7 0.75
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_CP042268 Pseudomonas aeruginosa strain HOU1 plasmid pHOU1-1, complete sequence 11418-11445 7 0.75
NZ_LT706985_4 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645169-1645201 33 NZ_CP021832 Sinorhizobium meliloti strain HM006 plasmid accessoryA, complete sequence 126885-126917 8 0.758
NZ_LT706985_4 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645169-1645201 33 MN035645 Leviviridae sp. isolate H1_Bulk_30_scaffold_308 RNA-dependent RNA polymerase (H1Bulk30308_000001), hypothetical protein (H1Bulk30308_000002), and hypothetical protein (H1Bulk30308_000003) genes, complete cds 585-617 8 0.758
NZ_LT706985_4 4.39|1647333|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1647333-1647365 33 NC_013855 Azospirillum sp. B510 plasmid pAB510a, complete sequence 876876-876908 8 0.758
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NC_012520 Rhodococcus opacus B4 plasmid pROB01, complete sequence 457833-457860 8 0.714
NZ_LT706985_5 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT 1789774-1789801 28 NZ_CP034156 Rhodococcus sp. NJ-530 plasmid unnamed4, complete sequence 563681-563708 8 0.714
NZ_LT706985_4 4.14|1645831|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645831-1645863 33 NZ_CP033582 Streptomyces sp. ADI95-16 plasmid pADI95-16a, complete sequence 455718-455750 9 0.727
NZ_LT706985_4 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645951-1645983 33 CP006582 Mesorhizobium huakuii 7653R plasmid pMHa, complete sequence 178849-178881 9 0.727
NZ_LT706985_4 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645951-1645983 33 NC_048046 Caulobacter phage CcrPW, complete genome 34970-35002 9 0.727
NZ_LT706985_4 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645951-1645983 33 JX100810 Caulobacter phage CcrColossus, complete genome 32891-32923 9 0.727
NZ_LT706985_4 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR 1645169-1645201 33 MG592416 Vibrio phage 1.032.O._10N.261.54.F5, partial genome 27096-27128 11 0.667

1. spacer 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NC_006362 (Nocardia farcinica IFM 10152 plasmid pNF1, complete sequence) position: , mismatch: 4, identity: 0.857

taccactgccgggtcgtcgagcggatca	CRISPR spacer
gaccacggccgcgtcgtcgagcggatcc	Protospacer
 ***** **** *************** 

2. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to MT188704 (Mesorhizobium phage Cp1R7A-A1, complete genome) position: , mismatch: 5, identity: 0.821

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
atgatctgcgcatcgagatcgaggtcga	Protospacer
.*.*** ***************** .**

3. spacer 5.7|1789838|28|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NC_005241 (Cupriavidus necator H16 megaplasmid pHG1, complete sequence) position: , mismatch: 5, identity: 0.821

agtctgctggttggcgggcggtgtttgc	CRISPR spacer
tgtctgctggctggagggcggtgtaagc	Protospacer
 *********.*** *********  **

4. spacer 5.7|1789838|28|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP039289 (Cupriavidus necator H16 plasmid pHG1, complete sequence) position: , mismatch: 5, identity: 0.821

agtctgctggttggcgggcggtgtttgc	CRISPR spacer
tgtctgctggctggagggcggtgtaagc	Protospacer
 *********.*** *********  **

5. spacer 4.18|1646072|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to KX397365 (Erwinia phage vB_EamM_Caitlin, complete genome) position: , mismatch: 6, identity: 0.818

----cactgtctgcacaaggtcggcaggcgcgtagta	CRISPR spacer
tcgaca----ctgcacaaggtcggcaggcgagtaata	Protospacer
    **    ******************** ***.**

6. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP025013 (Rhizobium leguminosarum strain Norway plasmid pRLN1, complete sequence) position: , mismatch: 6, identity: 0.786

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
ggaagcggcgcatcgagatcgaggcctc	Protospacer
* ** ******************* .  

7. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NC_015583 (Novosphingobium sp. PP1Y plasmid Mpl, complete sequence) position: , mismatch: 6, identity: 0.786

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
aggaccggcgcatcgagatcgggcgtga	Protospacer
. .*.****************.* ****

8. spacer 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP048283 (Rhizobium leguminosarum bv. viciae 248 plasmid pRle248c, complete sequence) position: , mismatch: 7, identity: 0.75

taccactgccgggtcgtcgagcggatca	CRISPR spacer
atccacggccgggtcgtcgtgcggacat	Protospacer
  **** ************ *****.  

9. spacer 5.5|1789710|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP035710 (Sphaerotilus natans subsp. sulfidivorans strain D-507 plasmid pSna507_unt10, complete sequence) position: , mismatch: 7, identity: 0.75

taccactgccgggtcgtcgagcggatca	CRISPR spacer
gaccaccgcctggtcgtcgagcggcggg	Protospacer
 *****.*** *************   .

10. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP021372 (Rhizobium sp. ACO-34A plasmid pRACO34Ad, complete sequence) position: , mismatch: 7, identity: 0.75

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
tgaatcggcgcatcgagatcgaaattcc	Protospacer
  ********************.. *  

11. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP013105 (Paraburkholderia caribensis strain MWAP64 plasmid 2, complete sequence) position: , mismatch: 7, identity: 0.75

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
gtaatcggcgcatcgaaaccgagacgcg	Protospacer
****************.*.****.   .

12. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_AP022593 (Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence) position: , mismatch: 7, identity: 0.75

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
ccacgtggcgcatcgagatcgagcgtgc	Protospacer
 .*  .***************** *** 

13. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP042268 (Pseudomonas aeruginosa strain HOU1 plasmid pHOU1-1, complete sequence) position: , mismatch: 7, identity: 0.75

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
tcttccggcgcatcgagatccagggaga	Protospacer
 .  .*************** **** **

14. spacer 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP021832 (Sinorhizobium meliloti strain HM006 plasmid accessoryA, complete sequence) position: , mismatch: 8, identity: 0.758

gcaagaccgcttctttgagcaatg--cggtaagcc	CRISPR spacer
tcaggaccgcttccttgagcaatgcacgatcgg--	Protospacer
 **.*********.**********  **.* .*  

15. spacer 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to MN035645 (Leviviridae sp. isolate H1_Bulk_30_scaffold_308 RNA-dependent RNA polymerase (H1Bulk30308_000001), hypothetical protein (H1Bulk30308_000002), and hypothetical protein (H1Bulk30308_000003) genes, complete cds) position: , mismatch: 8, identity: 0.758

gcaagaccgcttctttgagcaatgcggtaagcc	CRISPR spacer
tgaaggttgcttctttgagtcatgcggtaagca	Protospacer
  ***...***********. *********** 

16. spacer 4.39|1647333|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NC_013855 (Azospirillum sp. B510 plasmid pAB510a, complete sequence) position: , mismatch: 8, identity: 0.758

agacgagctggaggaaagccttgggctggcgga	CRISPR spacer
cggcgagctggaggaaaggcttggcctgaagct	Protospacer
 *.*************** ***** ***. *  

17. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NC_012520 (Rhodococcus opacus B4 plasmid pROB01, complete sequence) position: , mismatch: 8, identity: 0.714

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
tgtctcggcgcatcgagaccgagggatg	Protospacer
    **************.******  .

18. spacer 5.6|1789774|28|NZ_LT706985|CRISPRCasFinder,CRT matches to NZ_CP034156 (Rhodococcus sp. NJ-530 plasmid unnamed4, complete sequence) position: , mismatch: 8, identity: 0.714

gtaatcggcgcatcgagatcgagggtga	CRISPR spacer
tgtctcggcgcatcgagaccgagggatg	Protospacer
    **************.******  .

19. spacer 4.14|1645831|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP033582 (Streptomyces sp. ADI95-16 plasmid pADI95-16a, complete sequence) position: , mismatch: 9, identity: 0.727

gagccgtctccggcgaactcgcccgcgtgccag	CRISPR spacer
acgccgcccccggcgaactcgcccgccagctcc	Protospacer
. ****.*.*****************  **.  

20. spacer 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to CP006582 (Mesorhizobium huakuii 7653R plasmid pMHa, complete sequence) position: , mismatch: 9, identity: 0.727

cgctcgacgtaattgtcgaaggctgcgacgaga	CRISPR spacer
acatcgacgtaattgtagacggctgcgcgtata	Protospacer
   ************* ** *******   * *

21. spacer 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to NC_048046 (Caulobacter phage CcrPW, complete genome) position: , mismatch: 9, identity: 0.727

cgctcgacgtaattgtcgaaggctgcgacgaga	CRISPR spacer
atacggccgtaattgtcgaaggcatcgacgaca	Protospacer
   . * ****************  ****** *

22. spacer 4.16|1645951|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to JX100810 (Caulobacter phage CcrColossus, complete genome) position: , mismatch: 9, identity: 0.727

cgctcgacgtaattgtcgaaggctgcgacgaga	CRISPR spacer
atacggccgtaattgtcgaaggcatcgacgaca	Protospacer
   . * ****************  ****** *

23. spacer 4.3|1645169|33|NZ_LT706985|CRISPRCasFinder,CRT,PILER-CR matches to MG592416 (Vibrio phage 1.032.O._10N.261.54.F5, partial genome) position: , mismatch: 11, identity: 0.667

gcaagaccgcttctttgagcaatgcggtaagcc	CRISPR spacer
cttgtgacgcttctttcaggaatgcggtaagtg	Protospacer
 . . . ********* ** ***********. 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 617246 : 641461 28 Erysipelothrix_phage(66.67%) portal,terminase,head,protease,tail NA
DBSCAN-SWA_2 1820138 : 1828616 10 Pandoravirus(33.33%) protease,tRNA NA
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage