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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_CP044311 Escherichia coli strain RM13752 chromosome, complete genome 8 crisprs DinG,cas3,c2c9_V-U4,DEDDh,cas8e,cse2gr11,cas7,cas5,cas6e,cas1,cas2,csa3 0 10 15 0
NZ_CP051653 Escherichia coli strain RM13752 plasmid pRM13752 0 crisprs RT 0 0 0 0

Results visualization

1. NZ_CP044311
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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP044311_1 56226-56379 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_CP044311_2 617827-617968 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_CP044311_3 738901-739049 Orphan I-F
2 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP044311_4 2668593-2668926 Unclear I-E
5 spacers

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CRISPR_ID CRISPR_location CRISPR_type Repeat_type Spacer_info Cas_protein_info CRISPR-Cas_info
NZ_CP044311_5 2694625-2695202 TypeI-E I-E
9 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_CP044311_6 3576838-3576977 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_CP044311_7 4562388-4562465 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_CP044311_8 5107477-5107592 Orphan NA
1 spacers

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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_CP044311_1 1.1|56279|48|NZ_CP044311|CRISPRCasFinder 56279-56326 48 NZ_CP053606 Escherichia coli strain NEB_Turbo plasmid F', complete sequence 4089-4136 3 0.938
NZ_CP044311_1 1.1|56279|48|NZ_CP044311|CRISPRCasFinder 56279-56326 48 NZ_CP053608 Escherichia coli strain NEB5-alpha_F'Iq plasmid F'Iq, complete sequence 4088-4135 3 0.938
NZ_CP044311_1 1.1|56279|48|NZ_CP044311|CRISPRCasFinder 56279-56326 48 NZ_CP014271 Escherichia coli K-12 strain K-12 DHB4 plasmid F128-(DHB4), complete sequence 4088-4135 3 0.938
NZ_CP044311_1 1.1|56279|48|NZ_CP044311|CRISPRCasFinder 56279-56326 48 NZ_CP014273 Escherichia coli K-12 strain K-12 C3026 plasmid F128-(C3026), complete sequence 4088-4135 3 0.938
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MG299151 Shigella sonnei strain SH287-2 plasmid pSH287-2, complete sequence 51276-51307 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_KY471628 Shigella sonnei strain SH15sh99 plasmid pSH15sh99, complete sequence 45716-45747 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MG299131 Shigella sonnei strain SH271-2 plasmid pSH271-2, complete sequence 51276-51307 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_KY471629 Shigella sonnei strain SH15sh105 plasmid pSH15sh104, complete sequence 45716-45747 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MG299133 Shigella sonnei strain SH272-2 plasmid pSH272-2, complete sequence 51276-51307 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MG299128 Shigella sonnei strain SH262-2 plasmid pSH262-2, complete sequence 51276-51307 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MG299147 Shigella sonnei strain SH284-2 plasmid pSH284-2, complete sequence 51276-51307 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NC_018995 Escherichia coli plasmid pHUSEC41-1, complete sequence 29015-29046 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_CP053235 Escherichia coli strain SCU-106 plasmid pSCU-106-1, complete sequence 78292-78323 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_CP005999 Escherichia coli B7A plasmid pEB1, complete sequence 39563-39594 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 KU932021 Escherichia coli plasmid pEC3I, complete sequence 51902-51933 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_CP024154 Escherichia coli strain 14EC033 plasmid p14EC033g, complete sequence 18560-18591 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NC_011754 Escherichia coli ED1a plasmid pECOED, complete sequence 49240-49271 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_CP015141 Escherichia coli strain Ecol_732 plasmid pEC732_3, complete sequence 81434-81465 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_LR213460 Shigella sonnei strain AUSMDU00008333 isolate AUSMDU00008333 plasmid 3 28916-28947 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MH287044 Escherichia coli strain 5.1-R1 plasmid pCERC6, complete sequence 36182-36213 7 0.781
NZ_CP044311_4 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT 2668805-2668836 32 NZ_MH618673 Escherichia coli strain 838B plasmid p838B-R, complete sequence 32230-32261 7 0.781
NZ_CP044311_6 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder 3576887-3576928 42 NZ_CP010208 Escherichia coli strain M11 plasmid B, complete sequence 30214-30255 7 0.833
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MG299151 Shigella sonnei strain SH287-2 plasmid pSH287-2, complete sequence 51275-51307 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_KY471628 Shigella sonnei strain SH15sh99 plasmid pSH15sh99, complete sequence 45715-45747 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MG299131 Shigella sonnei strain SH271-2 plasmid pSH271-2, complete sequence 51275-51307 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_KY471629 Shigella sonnei strain SH15sh105 plasmid pSH15sh104, complete sequence 45715-45747 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MG299133 Shigella sonnei strain SH272-2 plasmid pSH272-2, complete sequence 51275-51307 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MG299128 Shigella sonnei strain SH262-2 plasmid pSH262-2, complete sequence 51275-51307 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MG299147 Shigella sonnei strain SH284-2 plasmid pSH284-2, complete sequence 51275-51307 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NC_018995 Escherichia coli plasmid pHUSEC41-1, complete sequence 29014-29046 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_CP053235 Escherichia coli strain SCU-106 plasmid pSCU-106-1, complete sequence 78291-78323 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_CP024154 Escherichia coli strain 14EC033 plasmid p14EC033g, complete sequence 18559-18591 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NC_011754 Escherichia coli ED1a plasmid pECOED, complete sequence 49239-49271 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_CP015141 Escherichia coli strain Ecol_732 plasmid pEC732_3, complete sequence 81433-81465 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_LR213460 Shigella sonnei strain AUSMDU00008333 isolate AUSMDU00008333 plasmid 3 28915-28947 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MH287044 Escherichia coli strain 5.1-R1 plasmid pCERC6, complete sequence 36181-36213 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_MH618673 Escherichia coli strain 838B plasmid p838B-R, complete sequence 32229-32261 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 NZ_CP005999 Escherichia coli B7A plasmid pEB1, complete sequence 39563-39595 8 0.758
NZ_CP044311_4 4.4|2668804|33|NZ_CP044311|PILER-CR 2668804-2668836 33 KU932021 Escherichia coli plasmid pEC3I, complete sequence 51902-51934 8 0.758
NZ_CP044311_4 4.8|2668744|32|NZ_CP044311|CRISPRCasFinder,CRT 2668744-2668775 32 NZ_CP012748 Paraburkholderia caribensis MBA4 plasmid unnamed, complete sequence 1417960-1417991 8 0.75
NZ_CP044311_5 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694776-2694807 32 NZ_CP034185 Deinococcus sp. S14-83 strain S14-83T plasmid unnamed1, complete sequence 17977-18008 8 0.75
NZ_CP044311_5 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694776-2694807 32 NZ_CP017753 Cupriavidus sp. USMAHM13 plasmid unnamed1, complete sequence 97497-97528 8 0.75
NZ_CP044311_5 5.8|2695081|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695081-2695112 32 NZ_CP006991 Rhizobium sp. IE4771 plasmid pRetIE4771e, complete sequence 532343-532374 8 0.75
NZ_CP044311_6 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder 3576887-3576928 42 NZ_CP048307 Escherichia coli strain 9 plasmid p009_C, complete sequence 24899-24940 8 0.81
NZ_CP044311_5 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694776-2694807 32 NZ_CP017750 Cupriavidus sp. USMAA2-4 plasmid unnamed1, complete sequence 405875-405906 9 0.719
NZ_CP044311_5 5.8|2695081|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695081-2695112 32 NZ_CP040723 Rhodococcus pyridinivorans strain YF3 plasmid unnamed4, complete sequence 35740-35771 9 0.719
NZ_CP044311_6 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder 3576887-3576928 42 NZ_CP048307 Escherichia coli strain 9 plasmid p009_C, complete sequence 24786-24827 9 0.786
NZ_CP044311_5 5.1|2694654|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694654-2694685 32 CP011075 Brevibacillus laterosporus strain B9 plasmid unnamed1, complete sequence 244686-244717 10 0.688
NZ_CP044311_5 5.1|2694654|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694654-2694685 32 GU075905 Prochlorococcus phage P-HM2, complete genome 78536-78567 10 0.688
NZ_CP044311_5 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694776-2694807 32 NZ_AP022593 Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence 2248362-2248393 10 0.688
NZ_CP044311_5 5.4|2694837|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694837-2694868 32 NZ_CP025810 Sulfitobacter sp. SK025 plasmid unnamed2, complete sequence 89235-89266 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 NC_007766 Rhizobium etli CFN 42 plasmid p42f, complete sequence 190028-190059 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 NZ_CP006990 Rhizobium sp. IE4771 plasmid pRetIE4771d, complete sequence 191384-191415 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 NZ_CP020911 Rhizobium etli strain NXC12 plasmid pRetNXC12e, complete sequence 329763-329794 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 NC_021911 Rhizobium etli bv. mimosae str. Mim1 plasmid pRetMIM1f, complete sequence 796218-796249 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 NZ_CP021127 Rhizobium sp. Kim5 plasmid pRetKim5c, complete sequence 177984-178015 10 0.688
NZ_CP044311_5 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2695020-2695051 32 CP007644 Rhizobium etli bv. phaseoli str. IE4803 plasmid pRetIE4803c, complete sequence 190516-190547 10 0.688
NZ_CP044311_5 5.4|2694837|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT 2694837-2694868 32 NC_019364 Sulfitobacter guttiformis plasmid pSD118, complete sequence 38310-38341 11 0.656

1. spacer 1.1|56279|48|NZ_CP044311|CRISPRCasFinder matches to NZ_CP053606 (Escherichia coli strain NEB_Turbo plasmid F', complete sequence) position: , mismatch: 3, identity: 0.938

tttacgccgcatccggcggttatgcgcagatgcctgatgcgacgctga	CRISPR spacer
tttatgccgcatccggcagttatgcgcagatgcctgatgcgacgctgg	Protospacer
****.************.*****************************.

2. spacer 1.1|56279|48|NZ_CP044311|CRISPRCasFinder matches to NZ_CP053608 (Escherichia coli strain NEB5-alpha_F'Iq plasmid F'Iq, complete sequence) position: , mismatch: 3, identity: 0.938

tttacgccgcatccggcggttatgcgcagatgcctgatgcgacgctga	CRISPR spacer
tttatgccgcatccggcagttatgcgcagatgcctgatgcgacgctgg	Protospacer
****.************.*****************************.

3. spacer 1.1|56279|48|NZ_CP044311|CRISPRCasFinder matches to NZ_CP014271 (Escherichia coli K-12 strain K-12 DHB4 plasmid F128-(DHB4), complete sequence) position: , mismatch: 3, identity: 0.938

tttacgccgcatccggcggttatgcgcagatgcctgatgcgacgctga	CRISPR spacer
tttatgccgcatccggcagttatgcgcagatgcctgatgcgacgctgg	Protospacer
****.************.*****************************.

4. spacer 1.1|56279|48|NZ_CP044311|CRISPRCasFinder matches to NZ_CP014273 (Escherichia coli K-12 strain K-12 C3026 plasmid F128-(C3026), complete sequence) position: , mismatch: 3, identity: 0.938

tttacgccgcatccggcggttatgcgcagatgcctgatgcgacgctga	CRISPR spacer
tttatgccgcatccggcagttatgcgcagatgcctgatgcgacgctgg	Protospacer
****.************.*****************************.

5. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MG299151 (Shigella sonnei strain SH287-2 plasmid pSH287-2, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

6. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_KY471628 (Shigella sonnei strain SH15sh99 plasmid pSH15sh99, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

7. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MG299131 (Shigella sonnei strain SH271-2 plasmid pSH271-2, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

8. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_KY471629 (Shigella sonnei strain SH15sh105 plasmid pSH15sh104, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

9. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MG299133 (Shigella sonnei strain SH272-2 plasmid pSH272-2, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

10. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MG299128 (Shigella sonnei strain SH262-2 plasmid pSH262-2, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

11. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MG299147 (Shigella sonnei strain SH284-2 plasmid pSH284-2, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

12. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NC_018995 (Escherichia coli plasmid pHUSEC41-1, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

13. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_CP053235 (Escherichia coli strain SCU-106 plasmid pSCU-106-1, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

14. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_CP005999 (Escherichia coli B7A plasmid pEB1, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

15. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to KU932021 (Escherichia coli plasmid pEC3I, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

16. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_CP024154 (Escherichia coli strain 14EC033 plasmid p14EC033g, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

17. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NC_011754 (Escherichia coli ED1a plasmid pECOED, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

18. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_CP015141 (Escherichia coli strain Ecol_732 plasmid pEC732_3, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

19. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_LR213460 (Shigella sonnei strain AUSMDU00008333 isolate AUSMDU00008333 plasmid 3) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

20. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MH287044 (Escherichia coli strain 5.1-R1 plasmid pCERC6, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

21. spacer 4.9|2668805|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_MH618673 (Escherichia coli strain 838B plasmid p838B-R, complete sequence) position: , mismatch: 7, identity: 0.781

aaatatccagggctgggctggaggcagacggc--	CRISPR spacer
cgttatccagggctgagctgcaggcag--ggcca	Protospacer
 . ************.**** ******  ***  

22. spacer 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder matches to NZ_CP010208 (Escherichia coli strain M11 plasmid B, complete sequence) position: , mismatch: 7, identity: 0.833

acgtaggtcagataaggtgtttacgccgcatccgactgctgt	CRISPR spacer
gcgtaggccagataaggcgtttacgccgcatccggcatttgt	Protospacer
.******.*********.****************.*  .***

23. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MG299151 (Shigella sonnei strain SH287-2 plasmid pSH287-2, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

24. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_KY471628 (Shigella sonnei strain SH15sh99 plasmid pSH15sh99, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

25. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MG299131 (Shigella sonnei strain SH271-2 plasmid pSH271-2, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

26. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_KY471629 (Shigella sonnei strain SH15sh105 plasmid pSH15sh104, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

27. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MG299133 (Shigella sonnei strain SH272-2 plasmid pSH272-2, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

28. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MG299128 (Shigella sonnei strain SH262-2 plasmid pSH262-2, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

29. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MG299147 (Shigella sonnei strain SH284-2 plasmid pSH284-2, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

30. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NC_018995 (Escherichia coli plasmid pHUSEC41-1, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

31. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_CP053235 (Escherichia coli strain SCU-106 plasmid pSCU-106-1, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

32. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_CP024154 (Escherichia coli strain 14EC033 plasmid p14EC033g, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

33. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NC_011754 (Escherichia coli ED1a plasmid pECOED, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

34. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_CP015141 (Escherichia coli strain Ecol_732 plasmid pEC732_3, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

35. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_LR213460 (Shigella sonnei strain AUSMDU00008333 isolate AUSMDU00008333 plasmid 3) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

36. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MH287044 (Escherichia coli strain 5.1-R1 plasmid pCERC6, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

37. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_MH618673 (Escherichia coli strain 838B plasmid p838B-R, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

38. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to NZ_CP005999 (Escherichia coli B7A plasmid pEB1, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

39. spacer 4.4|2668804|33|NZ_CP044311|PILER-CR matches to KU932021 (Escherichia coli plasmid pEC3I, complete sequence) position: , mismatch: 8, identity: 0.758

gaaatatccagggctgggctggaggcagacggc--	CRISPR spacer
acgttatccagggctgagctgcaggcag--ggcca	Protospacer
. . ************.**** ******  ***  

40. spacer 4.8|2668744|32|NZ_CP044311|CRISPRCasFinder,CRT matches to NZ_CP012748 (Paraburkholderia caribensis MBA4 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.75

tcaacgcgctcagacgttgcgtgagtgaacca	CRISPR spacer
acaacgcggtcggacgttgcgtgattaccccg	Protospacer
 ******* **.************ *.  **.

41. spacer 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP034185 (Deinococcus sp. S14-83 strain S14-83T plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.75

cccgtcaccgacgcgcagtggcgctaccgtga	CRISPR spacer
agcgtcaccgacgcgcagggccgctaccaact	Protospacer
  **************** * *******.   

42. spacer 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017753 (Cupriavidus sp. USMAHM13 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.75

cccgtcaccgacgcgcagtggcgctaccgtga	CRISPR spacer
gacgtcaccgacgcgcagtcgcgcttcttcaa	Protospacer
  ***************** ***** *. ..*

43. spacer 5.8|2695081|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP006991 (Rhizobium sp. IE4771 plasmid pRetIE4771e, complete sequence) position: , mismatch: 8, identity: 0.75

gtttaccgccccgcagaggcgctggcagatcc	CRISPR spacer
catcatcctcccgcagatgcgctggccgatcc	Protospacer
  *.*.* .******** ******** *****

44. spacer 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder matches to NZ_CP048307 (Escherichia coli strain 9 plasmid p009_C, complete sequence) position: , mismatch: 8, identity: 0.81

acgtaggtcagataaggtgtttacgccgcatccgactgctgt	CRISPR spacer
ttgtaggtcggataaggcgtttacgccgcatccgacatcaat	Protospacer
 .*******.*******.******************  * .*

45. spacer 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP017750 (Cupriavidus sp. USMAA2-4 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.719

cccgtcaccgacgcgcagtggcgctaccgtga	CRISPR spacer
gacgtcactgacgcgcagtcgcgcttcttcaa	Protospacer
  ******.********** ***** *. ..*

46. spacer 5.8|2695081|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP040723 (Rhodococcus pyridinivorans strain YF3 plasmid unnamed4, complete sequence) position: , mismatch: 9, identity: 0.719

gtttaccgccccgcagaggcgctggcagatcc	CRISPR spacer
cgagaccgcctcgccgaggcgctggcagcgac	Protospacer
    ******.*** *************   *

47. spacer 6.1|3576887|42|NZ_CP044311|CRISPRCasFinder matches to NZ_CP048307 (Escherichia coli strain 9 plasmid p009_C, complete sequence) position: , mismatch: 9, identity: 0.786

acgtaggtcagataaggtgtttacgccgcatccgactgctgt	CRISPR spacer
ttgtaggtcggataaggcgtttacgccgcatccgacatcaac	Protospacer
 .*******.*******.******************  * ..

48. spacer 5.1|2694654|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to CP011075 (Brevibacillus laterosporus strain B9 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.688

acggacaaaatatatattgatttgcgaattat	CRISPR spacer
tgaggcaaaatatagattgatttccgaaaata	Protospacer
  .*.********* ******** ****    

49. spacer 5.1|2694654|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to GU075905 (Prochlorococcus phage P-HM2, complete genome) position: , mismatch: 10, identity: 0.688

acggacaaaatatatattgatttgcgaattat	CRISPR spacer
acggaaaaattatatattgattttacttctgg	Protospacer
***** *** *************     .*. 

50. spacer 5.3|2694776|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_AP022593 (Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence) position: , mismatch: 10, identity: 0.688

cccgtcaccgacgcgcagtggcgctaccgtga	CRISPR spacer
gacatcaccgacgcccagtggcgcgacgtccc	Protospacer
  *.********** ********* **  .  

51. spacer 5.4|2694837|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP025810 (Sulfitobacter sp. SK025 plasmid unnamed2, complete sequence) position: , mismatch: 10, identity: 0.688

atttggcggcaccagattttgcgtcagatgac	CRISPR spacer
gagcagcggcagcagtttttgcgtcagatcga	Protospacer
.  ..****** *** ************* . 

52. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NC_007766 (Rhizobium etli CFN 42 plasmid p42f, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatcgc	Protospacer
 .. ..****** ******* ******** .*

53. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP006990 (Rhizobium sp. IE4771 plasmid pRetIE4771d, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatcgc	Protospacer
 .. ..****** ******* ******** .*

54. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP020911 (Rhizobium etli strain NXC12 plasmid pRetNXC12e, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatcgc	Protospacer
 .. ..****** ******* ******** .*

55. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NC_021911 (Rhizobium etli bv. mimosae str. Mim1 plasmid pRetMIM1f, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatccc	Protospacer
 .. ..****** ******* ********  *

56. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NZ_CP021127 (Rhizobium sp. Kim5 plasmid pRetKim5c, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatcgc	Protospacer
 .. ..****** ******* ******** .*

57. spacer 5.7|2695020|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to CP007644 (Rhizobium etli bv. phaseoli str. IE4803 plasmid pRetIE4803c, complete sequence) position: , mismatch: 10, identity: 0.688

catctatttatctcgccgcgattggcgataac	CRISPR spacer
agcacgtttatcacgccgcgtttggcgatcgc	Protospacer
 .. ..****** ******* ******** .*

58. spacer 5.4|2694837|32|NZ_CP044311|PILER-CR,CRISPRCasFinder,CRT matches to NC_019364 (Sulfitobacter guttiformis plasmid pSD118, complete sequence) position: , mismatch: 11, identity: 0.656

atttggcggcaccagattttgcgtcagatgac	CRISPR spacer
cagcatcggcaacagtttttgcgtcagatcga	Protospacer
   .. ***** *** ************* . 

Region Region Position Protein_number Hit_taxonomy Key_proteins Att_site Prophage annotation
DBSCAN-SWA_1 7183 : 84955 67 Enterobacteria_phage(39.13%) transposase,plate,integrase attL 50882:50897|attR 79186:79201
DBSCAN-SWA_2 333495 : 402885 72 Enterobacteria_phage(42.86%) protease,lysis,portal,tRNA,head,integrase,transposase,terminase,capsid,tail attL 343657:343703|attR 394359:394405
DBSCAN-SWA_3 830479 : 946035 135 Enterobacteria_phage(42.11%) protease,portal,head,integrase,transposase,terminase,capsid,tail,holin attL 845561:845620|attR 941298:941362
DBSCAN-SWA_4 1306298 : 1358147 61 Escherichia_phage(80.7%) tRNA,terminase,tail,plate,holin NA
DBSCAN-SWA_5 1548834 : 1603957 64 Enterobacteria_phage(40.43%) lysis,portal,head,integrase,transposase,terminase,capsid,tail,holin attL 1552634:1552650|attR 1604296:1604312
DBSCAN-SWA_6 1843416 : 1934230 109 Escherichia_phage(43.84%) protease,lysis,portal,tRNA,head,integrase,transposase,terminase,capsid,tail,holin attL 1915256:1915272|attR 1938657:1938673
DBSCAN-SWA_7 1942078 : 2008701 82 Enterobacteria_phage(74.0%) portal,tRNA,head,integrase,terminase,capsid,tail,plate,holin attL 1972988:1973047|attR 2009644:2009767
DBSCAN-SWA_8 2238582 : 2248024 10 Enterobacteria_phage(85.71%) NA NA
DBSCAN-SWA_9 2480368 : 2566384 49 Enterobacteria_phage(16.67%) transposase,integrase attL 2494269:2494328|attR 2565276:2567229
DBSCAN-SWA_10 2702627 : 2715810 12 Escherichia_phage(50.0%) NA NA
DBSCAN-SWA_11 2795881 : 2807330 13 Enterobacteria_phage(72.73%) integrase attL 2794873:2794886|attR 2807456:2807469
DBSCAN-SWA_12 3281900 : 3386817 104 Vibrio_phage(39.22%) protease,head,integrase,transposase,tail,plate attL 3281673:3281689|attR 3335014:3335030
DBSCAN-SWA_13 4340585 : 4442580 104 Escherichia_phage(39.13%) protease,lysis,portal,tRNA,head,integrase,transposase,terminase,capsid,tail,plate,holin attL 4369736:4369795|attR 4441491:4442775
DBSCAN-SWA_14 4864401 : 4876245 15 Enterobacteria_phage(90.0%) integrase attL 4859040:4859054|attR 4892233:4892247
DBSCAN-SWA_15 4968376 : 5040271 82 Escherichia_phage(32.76%) protease,portal,head,tRNA,integrase,transposase,terminase,capsid,tail,holin attL 4963013:4963027|attR 4997564:4997578
Acr ID Acr position Acr size Homology with known anti Neighbor HTH/AcRanker Neighbor Aca In prophage Protospacer in prophage