Array 1 248899-247588 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCKJ01000003.1 Salmonella sp. sc-h42 contig3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 248898 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 248837 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 248776 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 248715 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 248654 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 248593 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 248532 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 248471 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 248410 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 248349 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 248288 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 248227 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 248166 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 248105 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 248044 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 247983 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 247922 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 247861 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 247800 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 247739 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 247678 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 247617 29 100.0 0 ............................. | A [247590] ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 268756-266531 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCKJ01000003.1 Salmonella sp. sc-h42 contig3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 268755 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 268694 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 268633 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 268572 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 268510 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 268449 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 268388 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 268327 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 268266 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 268205 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 268144 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 268083 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 268022 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 267961 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 267900 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 267839 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 267778 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 267717 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 267656 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 267595 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 267534 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 267473 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 267412 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 267351 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 267290 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 267229 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 267168 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 267107 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 267046 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 266985 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 266924 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 266863 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 266802 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 266741 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 266680 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 266619 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 266558 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 37 29 97.9 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.90, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //