Array 1 72903-71426 **** Predicted by CRISPRDetect 2.4 *** >NZ_LONA01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium strain MHM112 contig_68, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 72902 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 72841 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 72779 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 72718 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 72657 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 72596 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 72535 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 72474 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 72413 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 72352 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 72291 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 72230 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 72169 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 72107 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 72004 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 71943 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 71882 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 71821 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 71760 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 71699 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 71638 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 71577 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 71516 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 71455 29 96.6 0 A............................ | A [71428] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 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 1 16632-15078 **** Predicted by CRISPRDetect 2.4 *** >NZ_LONA01000050.1 Salmonella enterica subsp. enterica serovar Typhimurium strain MHM112 contig_69, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16631 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 16570 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 16509 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 16448 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 16387 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 16326 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 16265 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 16204 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 16143 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 16082 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 16021 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 15960 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 15899 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 15838 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 15777 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 15716 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 15655 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 15593 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 15532 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 15471 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 15410 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 15349 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 15288 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 15227 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 15166 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15105 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 26 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 [10-1] 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], //