Array 1 3033417-3032001 **** Predicted by CRISPRDetect 2.4 *** >NZ_LT855376.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STMU2UK chromosome 1 Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3033416 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3033355 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3033293 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3033232 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3033171 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3033110 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3033049 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3032988 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3032927 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3032866 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3032805 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3032744 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3032683 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3032621 29 100.0 74 ............................. AATAAGGCGCGGTACCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3032518 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3032457 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3032396 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3032335 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3032274 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3032213 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3032152 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3032091 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3032030 29 96.6 0 A............................ | A [3032003] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 3050737-3049549 **** Predicted by CRISPRDetect 2.4 *** >NZ_LT855376.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STMU2UK chromosome 1 Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3050736 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3050675 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3050614 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3050553 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3050492 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3050431 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 3050370 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3050309 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3050248 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3050187 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3050126 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3050064 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3050003 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3049942 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3049881 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3049820 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3049759 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3049698 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3049637 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3049576 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 20 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [8-0] 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], //