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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
LR134155 Serratia rubidaea strain NCTC9419 genome assembly, chromosome: 1 2 crisprs DEDDh,cas3,RT,WYL,DinG,csa3 1 7 7 1

Results visualization

1. LR134155
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134155_2 4258208-4258475 Orphan I-F
4 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
LR134155_3 5108940-5109327 Orphan I-F
6 spacers

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CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_ID Protospacer_location Mismatch Identity
LR134155_3 3.6|5109268|32|LR134155|CRISPRCasFinder,PILER-CR 5109268-5109299 32 LR134155.1 434021-434052 0 1.0

1. spacer 3.6|5109268|32|LR134155|CRISPRCasFinder,PILER-CR matches to position: 434021-434052, mismatch: 0, identity: 1.0

taattgcacgcgcgtctttcagcgctaccgca	CRISPR spacer
taattgcacgcgcgtctttcagcgctaccgca	Protospacer
********************************

CRISPR_ID Spacer_Info Spacer_region Spacer_length Hit_phage_ID Hit_phage_def Protospacer_location Mismatch Identity
LR134155_3 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR 5109028-5109059 32 NZ_CP025507 Rhizobium leguminosarum bv. viciae strain UPM791 plasmid pRlvA, complete sequence 877648-877679 7 0.781
LR134155_3 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR 5109028-5109059 32 NZ_CP030761 Rhizobium leguminosarum strain ATCC 14479 plasmid unnamed1, complete sequence 707610-707641 7 0.781
LR134155_3 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR 5109028-5109059 32 NZ_CP022666 Rhizobium leguminosarum bv. viciae strain BIHB 1217 plasmid pPR1, complete sequence 298618-298649 7 0.781
LR134155_3 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR 5109028-5109059 32 NZ_CP050086 Rhizobium leguminosarum bv. trifolii strain 23B plasmid pRL23b7, complete sequence 1109687-1109718 7 0.781
LR134155_2 2.1|4258236|32|LR134155|PILER-CR,CRISPRCasFinder,CRT 4258236-4258267 32 MH791411 UNVERIFIED: Escherichia phage Ecwhy_1, complete genome 48091-48122 8 0.75
LR134155_2 2.1|4258236|32|LR134155|PILER-CR,CRISPRCasFinder,CRT 4258236-4258267 32 MH494197 Escherichia phage CMSTMSU, complete genome 230691-230722 8 0.75
LR134155_2 2.3|4258356|32|LR134155|PILER-CR,CRISPRCasFinder,CRT 4258356-4258387 32 MN445183 Salmonella phage vB_SalM_SA002, complete genome 183978-184009 8 0.75
LR134155_2 2.4|4258416|32|LR134155|PILER-CR,CRISPRCasFinder,CRT 4258416-4258447 32 NZ_CP010326 Pantoea sp. PSNIH1 plasmid pPSP-3a9, complete sequence 113825-113856 9 0.719
LR134155_3 3.3|5109088|32|LR134155|CRISPRCasFinder,PILER-CR 5109088-5109119 32 NC_014839 Pantoea sp. At-9b plasmid pPAT9B02, complete sequence 253555-253586 9 0.719
LR134155_3 3.4|5109148|32|LR134155|CRISPRCasFinder,PILER-CR 5109148-5109179 32 NZ_CP024907 Paraburkholderia caledonica strain PHRS4 plasmid pPHRS4, complete sequence 1863-1894 9 0.719
LR134155_3 3.5|5109208|32|LR134155|CRISPRCasFinder,PILER-CR 5109208-5109239 32 NZ_CP024907 Paraburkholderia caledonica strain PHRS4 plasmid pPHRS4, complete sequence 1863-1894 9 0.719
LR134155_2 2.4|4258416|32|LR134155|PILER-CR,CRISPRCasFinder,CRT 4258416-4258447 32 NC_019555 Agrobacterium tumefaciens strain F64/95 plasmid pAoF64/95, complete sequence 124164-124195 10 0.688

1. spacer 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP025507 (Rhizobium leguminosarum bv. viciae strain UPM791 plasmid pRlvA, complete sequence) position: , mismatch: 7, identity: 0.781

cgtctcgcctgcacaccggccgatcccgtaat	CRISPR spacer
cgtctcgcctgcacaacggccgatggcctgtc	Protospacer
*************** ********  * *. .

2. spacer 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP030761 (Rhizobium leguminosarum strain ATCC 14479 plasmid unnamed1, complete sequence) position: , mismatch: 7, identity: 0.781

cgtctcgcctgcacaccggccgatcccgtaat	CRISPR spacer
cgtctcgcctgcacaacggccgatggcctgtc	Protospacer
*************** ********  * *. .

3. spacer 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP022666 (Rhizobium leguminosarum bv. viciae strain BIHB 1217 plasmid pPR1, complete sequence) position: , mismatch: 7, identity: 0.781

cgtctcgcctgcacaccggccgatcccgtaat	CRISPR spacer
cgtctcgcctgcacaacggccgatggcctgtc	Protospacer
*************** ********  * *. .

4. spacer 3.2|5109028|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP050086 (Rhizobium leguminosarum bv. trifolii strain 23B plasmid pRL23b7, complete sequence) position: , mismatch: 7, identity: 0.781

cgtctcgcctgcacaccggccgatcccgtaat	CRISPR spacer
cgtctcgcctgcacaacggccgatggcctgtc	Protospacer
*************** ********  * *. .

5. spacer 2.1|4258236|32|LR134155|PILER-CR,CRISPRCasFinder,CRT matches to MH791411 (UNVERIFIED: Escherichia phage Ecwhy_1, complete genome) position: , mismatch: 8, identity: 0.75

gatcagggagtgaacttttaccagcagggtca	CRISPR spacer
tattataccgtgaagttttaccagcaggttca	Protospacer
 **.* .  ***** ************* ***

6. spacer 2.1|4258236|32|LR134155|PILER-CR,CRISPRCasFinder,CRT matches to MH494197 (Escherichia phage CMSTMSU, complete genome) position: , mismatch: 8, identity: 0.75

gatcagggagtgaacttttaccagcagggtca	CRISPR spacer
tattataccgtgaagttttaccagcaggttca	Protospacer
 **.* .  ***** ************* ***

7. spacer 2.3|4258356|32|LR134155|PILER-CR,CRISPRCasFinder,CRT matches to MN445183 (Salmonella phage vB_SalM_SA002, complete genome) position: , mismatch: 8, identity: 0.75

tgacggagtaacgaacaatgagtaaacgcatt	CRISPR spacer
atcaggagtaaggaacaatgagtaagcgcgta	Protospacer
    ******* *************.***.* 

8. spacer 2.4|4258416|32|LR134155|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP010326 (Pantoea sp. PSNIH1 plasmid pPSP-3a9, complete sequence) position: , mismatch: 9, identity: 0.719

tttttttgtcagcatcagaaacagcgctttac	CRISPR spacer
ataccccgtcagcgtcagaaacagcgcgttag	Protospacer
 * ....******.************* *** 

9. spacer 3.3|5109088|32|LR134155|CRISPRCasFinder,PILER-CR matches to NC_014839 (Pantoea sp. At-9b plasmid pPAT9B02, complete sequence) position: , mismatch: 9, identity: 0.719

aatcggccaatgacattttgctgacgcctatc	CRISPR spacer
ttgctgccagtgacattctgctgacgccaaca	Protospacer
   * ****.*******.********** *. 

10. spacer 3.4|5109148|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP024907 (Paraburkholderia caledonica strain PHRS4 plasmid pPHRS4, complete sequence) position: , mismatch: 9, identity: 0.719

ctgccgccgtggtttggcttagcgatggatct	CRISPR spacer
ctaccgccggggtttggcttagcgggtcggtt	Protospacer
**.****** **************.   . .*

11. spacer 3.5|5109208|32|LR134155|CRISPRCasFinder,PILER-CR matches to NZ_CP024907 (Paraburkholderia caledonica strain PHRS4 plasmid pPHRS4, complete sequence) position: , mismatch: 9, identity: 0.719

ctgccgccgtggtttggcttagcgatggatct	CRISPR spacer
ctaccgccggggtttggcttagcgggtcggtt	Protospacer
**.****** **************.   . .*

12. spacer 2.4|4258416|32|LR134155|PILER-CR,CRISPRCasFinder,CRT matches to NC_019555 (Agrobacterium tumefaciens strain F64/95 plasmid pAoF64/95, complete sequence) position: , mismatch: 10, identity: 0.688

tttttttgtcagcatcagaaacagcgctttac	CRISPR spacer
acgcgtagtcagcatctgaaacagcactttcg	Protospacer
 . . * ********* ********.****  

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 392990 : 434228 46 Enterobacteria_phage(41.67%) integrase,protease,capsid,portal,tail,head attL 384064:384077|attR 435996:436009
DBSCAN-SWA_2 711891 : 721831 18 Serratia_phage(22.22%) NA NA
DBSCAN-SWA_3 2747126 : 2752408 9 Enterobacteria_phage(83.33%) NA NA
DBSCAN-SWA_4 3064234 : 3070314 8 Only_Syngen_Nebraska_virus(33.33%) NA NA
DBSCAN-SWA_5 3098261 : 3145978 58 Erwinia_phage(28.57%) lysis,tRNA,tail,plate NA
DBSCAN-SWA_6 3931569 : 3940477 8 Planktothrix_phage(16.67%) protease,tRNA NA
DBSCAN-SWA_7 4418923 : 4455457 52 Pectobacterium_phage(26.47%) plate,protease,tail,portal 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
LR134155.1|VEA68490.1|419519_419834_-|Bacteriophage-Lambda-NinG-protein 419519_419834_- 104 aa aa NA NA NA 392990-434228 yes