Array 1 265536-267028 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIG01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2064 NODE_3_length_390531_cov_4.05703, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 265536 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 265597 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 265658 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 265719 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 265780 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 265841 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 265902 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 265963 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 266024 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 266085 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 266146 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 266207 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 266268 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 266329 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 266390 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 266451 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 266513 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 266574 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 266635 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 266696 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 266757 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 266818 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 266879 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 266940 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 267001 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 283161-284106 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIG01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2064 NODE_3_length_390531_cov_4.05703, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 283161 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 283222 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 283283 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 283344 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 283405 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 283467 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 283528 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 283589 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 283650 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 283711 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 283772 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 283833 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 283894 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 283955 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 284016 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 284077 29 96.6 0 A............................ | A [284103] ========== ====== ====== ====== ============================= ================================= ================== 16 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //