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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
CP016609 Xylella fastidiosa strain Salento-1 plasmid pSal1, complete sequence 0 crisprs NA 0 0 0 0
CP016608 Xylella fastidiosa strain Salento-1 chromosome, complete genome 2 crisprs cas3,c2c9_V-U4,DEDDh,Cas9_archaeal,WYL,csa3,DinG 4 4 9 0

Results visualization

1. CP016608
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
CP016608_1 2076668-2076816 Orphan NA
2 spacers
DinG

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
CP016608_2 2497799-2497947 Orphan NA
2 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
CP016608_1 1.1|2076694|37|CP016608|CRISPRCasFinder 2076694-2076730 37 CP016608.1 865572-865608 0 1.0
CP016608_1 1.2|2076757|34|CP016608|CRISPRCasFinder 2076757-2076790 34 CP016608.1 865512-865545 0 1.0
CP016608_2 2.1|2497825|37|CP016608|CRISPRCasFinder 2497825-2497861 37 CP016608.1 865572-865608 0 1.0
CP016608_2 2.2|2497888|34|CP016608|CRISPRCasFinder 2497888-2497921 34 CP016608.1 865512-865545 0 1.0

1. spacer 1.1|2076694|37|CP016608|CRISPRCasFinder matches to position: 865572-865608, mismatch: 0, identity: 1.0

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
ggagggtgccgctgctgctgatgtggccggtagcggt	Protospacer
*************************************

2. spacer 1.2|2076757|34|CP016608|CRISPRCasFinder matches to position: 865512-865545, mismatch: 0, identity: 1.0

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
gggtggcggtctgggagtcgatggtgccgccgcg	Protospacer
**********************************

3. spacer 2.1|2497825|37|CP016608|CRISPRCasFinder matches to position: 865572-865608, mismatch: 0, identity: 1.0

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
ggagggtgccgctgctgctgatgtggccggtagcggt	Protospacer
*************************************

4. spacer 2.2|2497888|34|CP016608|CRISPRCasFinder matches to position: 865512-865545, mismatch: 0, identity: 1.0

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
gggtggcggtctgggagtcgatggtgccgccgcg	Protospacer
**********************************

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
CP016608_1 1.1|2076694|37|CP016608|CRISPRCasFinder 2076694-2076730 37 NZ_CP035092 Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence 602553-602589 7 0.811
CP016608_1 1.1|2076694|37|CP016608|CRISPRCasFinder 2076694-2076730 37 NC_008688 Paracoccus denitrificans PD1222 plasmid 1, complete sequence 196086-196122 7 0.811
CP016608_2 2.1|2497825|37|CP016608|CRISPRCasFinder 2497825-2497861 37 NZ_CP035092 Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence 602553-602589 7 0.811
CP016608_2 2.1|2497825|37|CP016608|CRISPRCasFinder 2497825-2497861 37 NC_008688 Paracoccus denitrificans PD1222 plasmid 1, complete sequence 196086-196122 7 0.811
CP016608_1 1.1|2076694|37|CP016608|CRISPRCasFinder 2076694-2076730 37 NZ_CP048110 Klebsiella michiganensis strain BD177 plasmid unnamed2 28603-28639 9 0.757
CP016608_2 2.1|2497825|37|CP016608|CRISPRCasFinder 2497825-2497861 37 NZ_CP048110 Klebsiella michiganensis strain BD177 plasmid unnamed2 28603-28639 9 0.757
CP016608_1 1.2|2076757|34|CP016608|CRISPRCasFinder 2076757-2076790 34 NZ_CP020810 Mycobacterium dioxanotrophicus strain PH-06 plasmid unnamed1, complete sequence 61106-61139 10 0.706
CP016608_1 1.2|2076757|34|CP016608|CRISPRCasFinder 2076757-2076790 34 MN692199 Pectobacterium phage MA12, complete genome 54468-54501 10 0.706
CP016608_1 1.2|2076757|34|CP016608|CRISPRCasFinder 2076757-2076790 34 MN518139 Pectobacterium phage MA11, partial genome 29039-29072 10 0.706
CP016608_2 2.2|2497888|34|CP016608|CRISPRCasFinder 2497888-2497921 34 NZ_CP020810 Mycobacterium dioxanotrophicus strain PH-06 plasmid unnamed1, complete sequence 61106-61139 10 0.706
CP016608_2 2.2|2497888|34|CP016608|CRISPRCasFinder 2497888-2497921 34 MN692199 Pectobacterium phage MA12, complete genome 54468-54501 10 0.706
CP016608_2 2.2|2497888|34|CP016608|CRISPRCasFinder 2497888-2497921 34 MN518139 Pectobacterium phage MA11, partial genome 29039-29072 10 0.706
CP016608_1 1.2|2076757|34|CP016608|CRISPRCasFinder 2076757-2076790 34 NZ_CP016083 Streptomyces sp. SAT1 plasmid unnamed3, complete sequence 340551-340584 11 0.676
CP016608_2 2.2|2497888|34|CP016608|CRISPRCasFinder 2497888-2497921 34 NZ_CP016083 Streptomyces sp. SAT1 plasmid unnamed3, complete sequence 340551-340584 11 0.676

1. spacer 1.1|2076694|37|CP016608|CRISPRCasFinder matches to NZ_CP035092 (Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.811

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
tggcggcgccgctgctgctgatgtggccggttgggat	Protospacer
 *. **.************************ * *.*

2. spacer 1.1|2076694|37|CP016608|CRISPRCasFinder matches to NC_008688 (Paracoccus denitrificans PD1222 plasmid 1, complete sequence) position: , mismatch: 7, identity: 0.811

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
tggcggcgccgctgctgctgatgtggccggttgggat	Protospacer
 *. **.************************ * *.*

3. spacer 2.1|2497825|37|CP016608|CRISPRCasFinder matches to NZ_CP035092 (Paracoccus denitrificans strain ATCC 19367 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.811

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
tggcggcgccgctgctgctgatgtggccggttgggat	Protospacer
 *. **.************************ * *.*

4. spacer 2.1|2497825|37|CP016608|CRISPRCasFinder matches to NC_008688 (Paracoccus denitrificans PD1222 plasmid 1, complete sequence) position: , mismatch: 7, identity: 0.811

ggagggtgccgctgctgctgatgtggccggtagcggt	CRISPR spacer
tggcggcgccgctgctgctgatgtggccggttgggat	Protospacer
 *. **.************************ * *.*

5. spacer 1.1|2076694|37|CP016608|CRISPRCasFinder matches to NZ_CP048110 (Klebsiella michiganensis strain BD177 plasmid unnamed2) position: , mismatch: 9, identity: 0.757

ggagggtgccgctgctgctgatgtggccggt-agcggt	CRISPR spacer
tggcggtggcgcttctgctgatgtggccggtcaacaa-	Protospacer
 *. **** **** ***************** *.*.. 

6. spacer 2.1|2497825|37|CP016608|CRISPRCasFinder matches to NZ_CP048110 (Klebsiella michiganensis strain BD177 plasmid unnamed2) position: , mismatch: 9, identity: 0.757

ggagggtgccgctgctgctgatgtggccggt-agcggt	CRISPR spacer
tggcggtggcgcttctgctgatgtggccggtcaacaa-	Protospacer
 *. **** **** ***************** *.*.. 

7. spacer 1.2|2076757|34|CP016608|CRISPRCasFinder matches to NZ_CP020810 (Mycobacterium dioxanotrophicus strain PH-06 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
acaccgtggtctgggagtcgacgttgccgccggc	Protospacer
. .. *.**************.* ********  

8. spacer 1.2|2076757|34|CP016608|CRISPRCasFinder matches to MN692199 (Pectobacterium phage MA12, complete genome) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tggcggcggtcagggagtcgatggtcttgactaa	Protospacer
 **.******* ************* ..* *  .

9. spacer 1.2|2076757|34|CP016608|CRISPRCasFinder matches to MN518139 (Pectobacterium phage MA11, partial genome) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tggcggcggtcagggagtcgatggtcttgactaa	Protospacer
 **.******* ************* ..* *  .

10. spacer 2.2|2497888|34|CP016608|CRISPRCasFinder matches to NZ_CP020810 (Mycobacterium dioxanotrophicus strain PH-06 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
acaccgtggtctgggagtcgacgttgccgccggc	Protospacer
. .. *.**************.* ********  

11. spacer 2.2|2497888|34|CP016608|CRISPRCasFinder matches to MN692199 (Pectobacterium phage MA12, complete genome) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tggcggcggtcagggagtcgatggtcttgactaa	Protospacer
 **.******* ************* ..* *  .

12. spacer 2.2|2497888|34|CP016608|CRISPRCasFinder matches to MN518139 (Pectobacterium phage MA11, partial genome) position: , mismatch: 10, identity: 0.706

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tggcggcggtcagggagtcgatggtcttgactaa	Protospacer
 **.******* ************* ..* *  .

13. spacer 1.2|2076757|34|CP016608|CRISPRCasFinder matches to NZ_CP016083 (Streptomyces sp. SAT1 plasmid unnamed3, complete sequence) position: , mismatch: 11, identity: 0.676

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tccacacggtctcggagtggatggtgccgctgtc	Protospacer
     .****** ***** ***********.*. 

14. spacer 2.2|2497888|34|CP016608|CRISPRCasFinder matches to NZ_CP016083 (Streptomyces sp. SAT1 plasmid unnamed3, complete sequence) position: , mismatch: 11, identity: 0.676

gggtggcggtctgggagtcgatggtgccgccgcg	CRISPR spacer
tccacacggtctcggagtggatggtgccgctgtc	Protospacer
     .****** ***** ***********.*. 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 1132112 : 1151508 28 Stenotrophomonas_phage(60.0%) capsid,coat NA
DBSCAN-SWA_2 1156546 : 1165077 11 Xanthomonas_phage(85.71%) coat NA
DBSCAN-SWA_3 1186354 : 1207125 19 Xylella_phage(100.0%) NA NA
DBSCAN-SWA_4 1210934 : 1222311 14 Xylella_phage(100.0%) integrase attL 1208641:1208654|attR 1224928:1224941
DBSCAN-SWA_5 1289998 : 1300169 14 Salmonella_phage(25.0%) tail NA
DBSCAN-SWA_6 1316244 : 1325972 14 Xylella_phage(33.33%) NA NA
DBSCAN-SWA_7 1329370 : 1337688 12 Xylella_phage(45.45%) integrase attL 1329910:1329922|attR 1338290:1338302
DBSCAN-SWA_8 1383576 : 1392722 14 Salmonella_phage(27.27%) tail NA
DBSCAN-SWA_9 1397229 : 1419515 31 Haemophilus_phage(23.81%) integrase,head attL 1414286:1414299|attR 1418696:1418709
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage