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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
LT963352 Streptomyces chartreusis NRRL 3882 isolate NRRL3882 genome assembly, chromosome: I 5 crisprs cas5,cas7,cse2gr11,cas8e,cas3,csa3,WYL,DEDDh,DinG,Cas9_archaeal,cas4,casR 2 6 5 0

Results visualization

1. LT963352
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LT963352_4 85450-85599 TypeI-E NA
2 spacers
cas3,cas8e,cse2gr11,cas7,cas5,cas6e

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LT963352_2 83345-83495 TypeI-E NA
2 spacers
cas3,cas8e,cse2gr11,cas7,cas5,cas6e

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LT963352_3 83722-83872 TypeI-E NA
2 spacers
cas3,cas8e,cse2gr11,cas7,cas5,cas6e

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LT963352_1 83057-83223 TypeI-E NA
2 spacers
cas3,cas8e,cse2gr11,cas7,cas5,cas6e

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LT963352_5 3669891-3669968 Orphan NA
1 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
LT963352_5 5.1|3669920|20|LT963352|CRISPRCasFinder 3669920-3669939 20 LT963352.1 6601893-6601912 2 0.9
LT963352_10 10.2|5100601|21|LT963352|CRT 5100601-5100621 21 LT963352.1 1190642-1190662 2 0.905

1. spacer 5.1|3669920|20|LT963352|CRISPRCasFinder matches to position: 6601893-6601912, mismatch: 2, identity: 0.9

cgtggcgccggggtgtgggt	CRISPR spacer
cgcggcgcctgggtgtgggt	Protospacer
**.****** **********

2. spacer 10.2|5100601|21|LT963352|CRT matches to position: 1190642-1190662, mismatch: 2, identity: 0.905

gcgtcgtcacggtcccctcct	CRISPR spacer
gcgccgtcacggtcgcctcct	Protospacer
***.********** ******

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
LT963352_10 10.3|5100640|27|LT963352|CRT 5100640-5100666 27 NZ_CP023071 Sinorhizobium fredii CCBAU 83666 plasmid pSF83666b, complete sequence 265517-265543 5 0.815
LT963352_10 10.3|5100640|27|LT963352|CRT 5100640-5100666 27 NZ_CP029452 Sinorhizobium fredii CCBAU 25509 plasmid pSF25509b, complete sequence 1833127-1833153 5 0.815
LT963352_10 10.3|5100640|27|LT963352|CRT 5100640-5100666 27 NZ_CP035511 Haematobacter massiliensis strain OT1 plasmid pOT1-1, complete sequence 131291-131317 5 0.815
LT963352_1 1.2|83162|33|LT963352|CRISPRCasFinder 83162-83194 33 NC_023284 Streptomyces sp. F2 plasmid pFRL4, complete sequence 426834-426866 6 0.818
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NZ_CP035002 Rhizobium acidisoli strain FH23 plasmid pRapFH23d, complete sequence 643128-643157 6 0.8
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NC_011371 Rhizobium leguminosarum bv. trifolii WSM2304 plasmid pRLG204, complete sequence 123820-123849 6 0.8
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NZ_CP043441 Cupriavidus campinensis strain MJ1 plasmid unnamed1, complete sequence 2497951-2497980 7 0.767
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NZ_CP039644 Azospirillum sp. TSA2s plasmid p2, complete sequence 331888-331917 7 0.767
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 CP006880 Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602c, complete sequence 167110-167139 7 0.767
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NZ_CP023000 Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-B, complete sequence 1289200-1289229 7 0.767
LT963352_4 4.1|85471|40|LT963352|PILER-CR 85471-85510 40 NZ_CP030863 Streptomyces globosus strain LZH-48 plasmid unnamed1, complete sequence 81-120 8 0.8
LT963352_2 2.2|83434|33|LT963352|CRISPRCasFinder 83434-83466 33 NC_016626 Burkholderia sp. YI23 plasmid byi_1p, complete sequence 1827219-1827251 9 0.727
LT963352_3 3.1|83750|34|LT963352|CRISPRCasFinder 83750-83783 34 NZ_CP011665 Streptomyces sp. Mg1 plasmid pSMg1-1, complete sequence 86097-86130 9 0.735
LT963352_3 3.1|83750|34|LT963352|CRISPRCasFinder 83750-83783 34 NZ_CP013003 Caulobacter henricii strain CB4 plasmid pCB4, complete sequence 59160-59193 9 0.735
LT963352_12 12.1|5867782|30|LT963352|CRISPRCasFinder 5867782-5867811 30 NZ_AP013104 Bradyrhizobium elkanii USDA 61 plasmid pBel61, complete sequence 93186-93215 9 0.7
LT963352_3 3.1|83750|34|LT963352|CRISPRCasFinder 83750-83783 34 NZ_CP029356 Azospirillum sp. CFH 70021 plasmid unnamed1 581371-581404 10 0.706
LT963352_4 4.1|85471|40|LT963352|PILER-CR 85471-85510 40 NZ_CP038636 Cupriavidus oxalaticus strain X32 plasmid unnamed1, complete sequence 7121-7160 10 0.75
LT963352_3 3.1|83750|34|LT963352|CRISPRCasFinder 83750-83783 34 NZ_CP025552 Streptomyces rimosus strain WT5260 plasmid unnamed, complete sequence 99308-99341 11 0.676

1. spacer 10.3|5100640|27|LT963352|CRT matches to NZ_CP023071 (Sinorhizobium fredii CCBAU 83666 plasmid pSF83666b, complete sequence) position: , mismatch: 5, identity: 0.815

ccgtcgaggcctggccgtccgtgccgc	CRISPR spacer
ccgccgcggcctggccgtccgtgcaca	Protospacer
***.** *****************   

2. spacer 10.3|5100640|27|LT963352|CRT matches to NZ_CP029452 (Sinorhizobium fredii CCBAU 25509 plasmid pSF25509b, complete sequence) position: , mismatch: 5, identity: 0.815

ccgtcgaggcctggccgtccgtgccgc	CRISPR spacer
ccgccgcggcctggccgtccgtgcaca	Protospacer
***.** *****************   

3. spacer 10.3|5100640|27|LT963352|CRT matches to NZ_CP035511 (Haematobacter massiliensis strain OT1 plasmid pOT1-1, complete sequence) position: , mismatch: 5, identity: 0.815

ccgtcgaggcctggccgtccgtgccgc	CRISPR spacer
ccgtcgaggcggggccgtccgtgtccg	Protospacer
**********  ***********.*  

4. spacer 1.2|83162|33|LT963352|CRISPRCasFinder matches to NC_023284 (Streptomyces sp. F2 plasmid pFRL4, complete sequence) position: , mismatch: 6, identity: 0.818

gatcgtcttcgacgactgcaccaccgagcaacg	CRISPR spacer
gatcgtcttcgacgacttcaccaccgagggcaa	Protospacer
***************** ********** .  .

5. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NZ_CP035002 (Rhizobium acidisoli strain FH23 plasmid pRapFH23d, complete sequence) position: , mismatch: 6, identity: 0.8

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
tccgcagcttggcgccacccaggctttggc	Protospacer
********..**************...* *

6. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NC_011371 (Rhizobium leguminosarum bv. trifolii WSM2304 plasmid pRLG204, complete sequence) position: , mismatch: 6, identity: 0.8

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
tccgcagcttggcgccacccaggctttggc	Protospacer
********..**************...* *

7. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NZ_CP043441 (Cupriavidus campinensis strain MJ1 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.767

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
ccagcagcaccgcgccacccaggccccaga	Protospacer
.* ***** * ****************.  

8. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NZ_CP039644 (Azospirillum sp. TSA2s plasmid p2, complete sequence) position: , mismatch: 7, identity: 0.767

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
gccgcagcccggcggcacgcaggccgttgc	Protospacer
 ************* *** ****** .  *

9. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to CP006880 (Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602c, complete sequence) position: , mismatch: 7, identity: 0.767

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
tccgcagctcggcgccacgcaggcgctcgt	Protospacer
********.********* ***** *.  .

10. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NZ_CP023000 (Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-B, complete sequence) position: , mismatch: 7, identity: 0.767

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
cccgcagctcggcgcgacccaggcgcttgc	Protospacer
.*******.****** ******** *.  *

11. spacer 4.1|85471|40|LT963352|PILER-CR matches to NZ_CP030863 (Streptomyces globosus strain LZH-48 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.8

atacggcctcggcctccttcaccatgtggtggaacacttg	CRISPR spacer
cgaacgcctcggcctccttcaccacgtggtggaagaccag	Protospacer
  *  *******************.********* **. *

12. spacer 2.2|83434|33|LT963352|CRISPRCasFinder matches to NC_016626 (Burkholderia sp. YI23 plasmid byi_1p, complete sequence) position: , mismatch: 9, identity: 0.727

cgacaggccgtccgaccagtccttcttgaagga	CRISPR spacer
ttagcggacgttcgaccagtccttcttgaccgt	Protospacer
. *  ** ***.*****************  * 

13. spacer 3.1|83750|34|LT963352|CRISPRCasFinder matches to NZ_CP011665 (Streptomyces sp. Mg1 plasmid pSMg1-1, complete sequence) position: , mismatch: 9, identity: 0.735

cagggcggcgagttgggcgaggcggggggtagga	CRISPR spacer
caggtcggcgagttgggcgaggccggcaacgagg	Protospacer
**** ****************** ** .....*.

14. spacer 3.1|83750|34|LT963352|CRISPRCasFinder matches to NZ_CP013003 (Caulobacter henricii strain CB4 plasmid pCB4, complete sequence) position: , mismatch: 9, identity: 0.735

cagggcggcgagttgggcgaggcggggggtagga---	CRISPR spacer
gcggggggtgagttgggcgaggc---gggcaagatct	Protospacer
  *** **.**************   ***.*.**   

15. spacer 12.1|5867782|30|LT963352|CRISPRCasFinder matches to NZ_AP013104 (Bradyrhizobium elkanii USDA 61 plasmid pBel61, complete sequence) position: , mismatch: 9, identity: 0.7

tccgcagcccggcgccacccaggccccgcc	CRISPR spacer
cggccagcccggcgccagccaggccgagat	Protospacer
.   ************* *******  * .

16. spacer 3.1|83750|34|LT963352|CRISPRCasFinder matches to NZ_CP029356 (Azospirillum sp. CFH 70021 plasmid unnamed1) position: , mismatch: 10, identity: 0.706

cagggcggcgagttgggcgaggcggggggtagga	CRISPR spacer
gagcacggcgagctgggcgaggcgggaggccatg	Protospacer
 ** .*******.*************.**. . .

17. spacer 4.1|85471|40|LT963352|PILER-CR matches to NZ_CP038636 (Cupriavidus oxalaticus strain X32 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.75

-atacggcctcggcctccttcaccatgtggtggaacacttg	CRISPR spacer
catg-agcctcggcgtccttcaccatgtgctggatctcgcc	Protospacer
 **. .******** ************** **** * * . 

18. spacer 3.1|83750|34|LT963352|CRISPRCasFinder matches to NZ_CP025552 (Streptomyces rimosus strain WT5260 plasmid unnamed, complete sequence) position: , mismatch: 11, identity: 0.676

cagggcggcgagttgggcgaggcggggggtagga	CRISPR spacer
gtgcgcggcgagctgggcgaggcggcggccgtcc	Protospacer
  * ********.************ ** ..   

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 4527055 : 4533667 10 Streptomyces_phage(83.33%) NA NA
DBSCAN-SWA_2 4538558 : 4549832 14 Streptomyces_phage(88.89%) capsid,portal NA
DBSCAN-SWA_3 5156076 : 5212827 52 Hepacivirus(33.33%) bacteriocin,protease,coat NA
DBSCAN-SWA_4 5530474 : 5598432 59 Staphylococcus_phage(25.0%) protease,holin NA
DBSCAN-SWA_5 7991835 : 8013580 16 Bacillus_phage(50.0%) plate,tail,protease NA
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage