Array 1 3084676-3083565 **** Predicted by CRISPRDetect 2.4 *** >NZ_LR862421.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate 5d8c9f00c6184d00f9da85a6:sample:O1960-05 chromosome 1, complete sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3084675 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3084614 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3084552 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3084491 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3084430 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3084369 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3084308 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3084246 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3084143 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3084082 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3084021 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3083960 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3083899 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3083838 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3083777 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3083716 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3083655 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3083594 29 96.6 0 A............................ | A [3083567] ========== ====== ====== ====== ============================= ========================================================================== ================== 18 29 99.4 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.15, 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 3102240-3100808 **** Predicted by CRISPRDetect 2.4 *** >NZ_LR862421.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate 5d8c9f00c6184d00f9da85a6:sample:O1960-05 chromosome 1, complete sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3102239 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3102178 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3102117 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3102056 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3101995 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3101934 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3101873 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3101812 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3101751 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3101690 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3101629 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3101568 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3101507 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3101446 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3101385 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3101323 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3101262 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3101201 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3101140 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3101079 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3101018 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3100957 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3100896 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3100835 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [9-1] 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], //