Array 1 146-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKT01000118.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 145 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 84 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 23 23 79.3 0 .......................------ | ========== ====== ====== ====== ============================= ================================ ================== 3 29 93.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : T # Questionable array : NO Score: 5.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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], // Array 1 129-1195 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKT01000295.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 129 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 190 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 251 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 312 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 373 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 434 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 495 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 556 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 617 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 678 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 739 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 800 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 861 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 922 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 983 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1044 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1106 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1167 29 96.6 0 ..........T.................. | ========== ====== ====== ====== ============================= ================================= ================== 18 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGTG # Right flank : TCATTTCTGGACGGGGCTGTGTGACGAATAC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-25.0]%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], // Array 1 8315-7493 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKT01000194.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8314 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8253 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8192 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8131 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 8070 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 8008 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7947 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7886 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7825 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7764 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7703 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7642 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7581 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7520 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AATTGGACACGGTTTATCCCCGCTGGCGCGGGGAACACCGTATTCGTCACACAGCCCCGTCCAGAAATGACGGTTTATCCCCGCTGGCACGGGGAACACTAACGAACTGAATAAAATGTCAGAAAGTGACGCGGCTTATCCCCGCTGGCGCGGGGAACACGCAGCTTAGCGACGAAATTAAAACCGAACTCACCGGTTTATCCCCGCTGGCGCGGGGAACACTGCCAGTGACTACAGAAGCGTCGCTATCGGGGCGGTTTATCCCCGCTGGCGCGGGGAACACACCGATAAACAACCGCATAGCCTCTTTCGTTTCGATTTATCCCTGCTGGCGCGGGGAACACTGCTCAATAACGTCGTAAATAGCGTAAGCTGGCGGTTTATCCCCGCTGGCGCGGGGAACACTATTTCGCCTTCGGCACTGACGTCACCGTCAACGGTTTATCCCCGCTGGCGCGGGGAACACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGAT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [6-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-46.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 8349-8805 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKT01000194.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8349 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8410 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8471 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 8532 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 8593 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 8655 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 8716 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 8777 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 8 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AATTGGACACGGTTTATCCCCGCTGGCGCGGGGAACACCGTATTCGTCACACAGCCCCGTCCAGAAATGACGGTTTATCCCCGCTGGCACGGGGAACACTAACGAACTGAATAAAATGTCAGAAAGTGACGCGGCTTATCCCCGCTGGCGCGGGGAACACGCAGCTTAGCGACGAAATTAAAACCGAACTCACCGGTTTATCCCCGCTGGCGCGGGGAACACACCGATAAACAACCGCATAGCCTCTTTCGTTTCGATTTATCCCTGCTGGCGCGGGGAACACTGCTCAATAACGTCGTAAATAGCGTAAGCTGGCGGTTTATCCCCGCTGGCGCGGGGAACACTATTTCGCCTTCGGCACTGACGTCACCGTCAACGGTTTATCCCCGCTGGCGCGGGGAACACGTCGCGTTCGTTGCCGGTATAGACCAGCGTCACGGTTTATCCCCGCTGGCGCGGGGAACACATCGAATCGAAACCCCAGCCACAGAAATAATTCG # Right flank : TGTCCAATTAACCCAAACTTTGCGCGCTTAATATG # 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: NA [2-2] Score: 0/0.41 # AT richness analysis in flanks prediction: F [46.7-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 8454-10418 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDKT01000090.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 8454 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 8515 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 8576 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 8637 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 8698 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 8759 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 8820 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 8882 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 8943 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 9004 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 9065 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 9126 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 9187 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 9248 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 9309 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9370 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 9431 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 9492 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 9553 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 9614 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 9675 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 9737 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 9840 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 9901 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 9962 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 10023 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 10084 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 10145 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 10206 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 10267 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 10328 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 10389 29 96.6 0 A............................ | A [10415] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 [1-3] 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], //