Array 1 4054221-4051443 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP030231.1 Salmonella enterica strain SA20043041 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4054220 29 100.0 32 ............................. CAGCGCACTACCCGGCAATAAATCTCCGAATA 4054159 29 100.0 32 ............................. GCGGTATTCACGGATGTATCAGCGAGCAGATC 4054098 29 100.0 32 ............................. GCCCGCCAATTTGGCAGCGCGATGACGCAAAT 4054037 29 100.0 32 ............................. CTGATATCGCCTCGTTAATTTCTTTTACAGCT 4053976 29 100.0 32 ............................. AATTAAATGAAATACGACAGCGCACGTTAAAA 4053915 29 96.6 32 ............................A TCCAGTCGGCGATGTTAAACAGTGACGCGACC 4053854 29 100.0 32 ............................. GTTGCCGGGATATGGCGGAGAATTATATATCG 4053793 29 100.0 32 ............................. CAGAAAGCGGTCATCACCTCCGTAATTGGTGT 4053732 29 100.0 32 ............................. AAATCGACCGAAAATTCGGACAGTACAACGTC 4053671 29 96.6 32 .................C........... TCCAGTGTTTATTTTAGACTCGCAACAATTAA 4053610 29 100.0 32 ............................. GCGATTCCGTTGTCGGCCAGCTTCAGGCGGTT 4053549 29 100.0 32 ............................. CTCCAGGCGGCCCCGACATATAGCGCTCATGC 4053488 29 100.0 32 ............................. CAGGTCACTAAAATTTGTAGGGTTATCCACAG 4053427 29 100.0 32 ............................. GCCTTAGAAGATGACGACCTGATTTCAATTGA 4053366 29 100.0 32 ............................. TAAATTTTCAAAACCAGCTTGTGATGGTTATA 4053305 29 100.0 32 ............................. GGGATTTTGGATCGCCCGGTGATAGAGAATTA 4053244 29 100.0 32 ............................. CGGTTCCATTGACCCGCGCTGCGGGCTGTCCT 4053183 29 100.0 32 ............................. CACGTTTCCTGCCTAATAAATGGATGATGTCG 4053122 29 100.0 32 ............................. GACAGTGCCCTGCTGTTGGGCGGTGTCAGCAC 4053061 29 100.0 32 ............................. CGTGGAACTTTATCCGCACAGATTTCCTGCGC 4053000 29 100.0 32 ............................. GACGCAGGGGTTACTGATGAACTGAAAAAGCA 4052939 29 100.0 32 ............................. CAGCGGGAGGAAATTAACAGCCTGAAATCAGG 4052878 29 100.0 32 ............................. GGAAACGCATATGAGCACACAAACAACCGGCA 4052817 29 100.0 32 ............................. TACCGTTAACCAGCTCAATAAAAACCAGGTGA 4052756 29 100.0 33 ............................. GTTGCCAGCGCAATTCCGTGAACACCCACAATT 4052694 29 100.0 32 ............................. AGCAACATCGACAAACAGGCGCTACGTGAAAC 4052633 29 96.6 32 C............................ TTCGCGCCAGATTTTAGCGAGGTGATACAGGT 4052572 29 100.0 32 ............................. GATCAATATCCGCCACCTCTTTACCATCAACA 4052511 29 100.0 32 ............................. GACGATGTTACCGGTGCTGATGTGCTGGATAC 4052450 29 100.0 32 ............................. TATCACGGATAGGATATAAACACGGTTAAAAC 4052389 29 96.6 32 ............................C GGATGAAAGAAGGGCAGGAAAAAATCTACTAC 4052328 29 100.0 32 ............................. CAAACGCCAACGCAACCACAACCCGCCATTAC 4052267 29 100.0 32 ............................. TCGCTGTTAACCGCTCTCGCACTGCGTCAGGC 4052206 29 100.0 32 ............................. CAATTGACGAGCCTTCCATATAGGACGCCCGC 4052145 29 100.0 32 ............................. GCATATGGAGAATACATTTACTCAGTGAATAT 4052084 29 100.0 32 ............................. AATATTTCTGGCGCCAGGTGCATTCCGTCGCA 4052023 29 100.0 32 ............................. TTCTCTGGAATTATATTTTGTTCCGCACGTTC 4051962 29 96.6 32 .................T........... TCATTCAGCGAACGCAGGAGAACCAGCCGCCG 4051901 29 100.0 32 ............................. TTCGGGAATTTATTCAGCCAGACGACAGCCGA 4051840 29 100.0 33 ............................. CCGTATCTGCTCTATCAGCTCGGCTCGGCGCGC 4051778 29 100.0 32 ............................. CGTCAGAAAAACGGTTTATGCCGCCAGCCTGA 4051717 29 100.0 33 ............................. ACCGCTTTGTCGAACTCTCCGAACTGCGCCAGC 4051655 29 100.0 32 ............................. CAAACTGTGATTATGTGCTGACTCAATCTTTT 4051594 29 100.0 32 ............................. CTGACGGTAAAACTACGGTACCGCCGTAGTAA 4051533 29 100.0 32 ............................. GGGCGGCTGTCGTGGGTATTGAGAACACCGCT 4051472 29 100.0 0 ............................. | A [4051445] ========== ====== ====== ====== ============================= ================================= ================== 46 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGAAATGCCGTCATGGCTTGGGCGACCAACACGGAGTCGGGATTTGAGTTTCAGACATGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAAAAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCGATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [2-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-73.3]%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 4071601-4070475 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP030231.1 Salmonella enterica strain SA20043041 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 4071600 29 100.0 32 ............................. CGCCATCATCGCGCAGCACTGGCTGGTGGATA 4071539 29 100.0 32 ............................. TACGTTGACGCTGGCAAACGGCTCGATTTCGT 4071478 29 100.0 32 ............................. CTGTTAACTCAGCGATGGGGAGTGTCGGTGGC 4071417 29 100.0 32 ............................. CCTGGCGGCACACTCTACCGCCCGTGGTGGCA 4071356 29 100.0 32 ............................. GCGGAAGGATTCGTCCATCTCACCGCGATCAA 4071295 29 100.0 32 ............................. CGTGTTTTCATTCCCCGCCTCGCCTATTTTAT 4071234 29 100.0 32 ............................. CCCCGTTAAGGGGCTTTTTTATGCCCGCCGTC 4071173 29 100.0 32 ............................. TGCTGGATACACGCGTTTCAATGGTCAGAGTT 4071112 29 100.0 32 ............................. TCCGCGGTGATAGTATGCGGGGAACTATAGAC 4071051 29 100.0 32 ............................. GGAAACGAAGATGACCTTTATTAGAGATATCC 4070990 29 100.0 32 ............................. TGCTGAATCTTTGCGAGTGGGATGATGGCACT 4070929 29 96.6 32 .....T....................... CCGCTACGATCTATTCGAATCATAGTGGTGCG 4070868 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 4070807 29 100.0 32 ............................. TCCTTTTATTCTAATGGGTTAGATAGGGTAGA 4070746 29 100.0 32 ............................. AAAACTGCACCGCCGCTGCCACTGAGTTTGCT 4070685 29 100.0 32 ............................. GCGCAGAATTTACAGGTGTCACTGTTGTCCGG 4070624 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 4070563 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 4070502 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%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], //