Array 1 3100759-3099343 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060169.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BKQZM9 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3100758 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3100697 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3100635 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3100574 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3100513 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3100452 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3100391 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3100330 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3100269 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3100208 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3100147 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3100086 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3100025 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3099963 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3099860 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3099799 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3099738 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3099677 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3099616 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3099555 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3099494 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3099433 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3099372 29 96.6 0 A............................ | A [3099345] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3118140-3116891 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP060169.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BKQZM9 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3118139 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3118078 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3118017 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3117956 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3117895 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3117834 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 3117773 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3117712 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3117651 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3117590 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3117529 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3117468 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3117406 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3117345 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3117284 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3117223 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3117162 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3117101 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3117040 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3116979 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3116918 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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], //