Array 1 37-309 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHV01000068.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM45, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 37 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 98 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 159 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 220 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 281 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGAGCCGTTTCCGCTAAATACCCCCGCAGTGATTG # Right flank : GGCAACCCATTAATTAACTAAGCAGTAATAAACGTGTTCCCCGCTGSCGCGGGGAACACGTTTATTACTGCTTAGTTAATTAATGGGTTGCCGGTTTATCCCCGCTGGCGCGGGGAACACAGGCGAATAATCTCTAATAGTCTCAATTCGTTCGGTTTATCCCCGCTGGCGCGGGGAACACTAAATCTGGCGTCGAGACATTCGAAATAGTGCCGGTTTATCCCCGCTGGCGCGGGGAACACTCTTTTGATTTTGCTGCGATGTTATAACCAGACGGTTTATCCCCGCTGGCGCGGGGAACACTATCCACATATACCCGCAATCATATTCAAGAACGGTTTATCCCCGCTGGCGCGGGGAACACAATCACTGCGGGGGTATTTAGCGGAAACGGCTCGGTTTATCCCCGCTGGCGCGGGGAACACGATCGAGTAACGTGCGCTGGAACGCGTCGGCGCGGGGAACACAATTAAAGCCGAGGGTGGCACCGCGCCTTATTC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [26.7-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 2120-400 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHV01000068.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 2119 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 2058 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1997 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1936 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1875 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 1814 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 1753 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1691 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1630 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 1569 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 1508 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1447 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1386 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1325 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1264 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1203 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1142 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1081 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1020 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 959 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 898 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 836 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 733 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 672 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 611 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 550 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 489 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 428 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================================================== ================== 28 29 99.8 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GGCAACCCATTAATTAACTAAGCAGTAATAAACGTGTTCCCCGCGSCAGCGGGGAACACGTTTATTACTGCTTAGTTAATTAATGGGTTGCCGGTTTATCCCCGCTGGCGCGGGGAACACAGGCGAATAATCTCTAATAGTCTCAATTCGTTCGGTTTATCCCCGCTGGCGCGGGGAACACTAAATCTGGCGTCGAGACATTCGAAATAGTGCCGGTTTATCCCCGCTGGCGCGGGGAACACTCTTTTGATTTTGCTGCGATGTTATAACCAGACGGTTTATCCCCGCTGGCGCGGGGAACACTATCCACATATACCCGCAATCATATTCAAGAACGGTTTATCCCCGCTGGCGCGGGGAACACAATCACTGCGGGGGTATTTAGCGGAAACGGCTCGGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.09, 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: F [0-1] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 19744-18251 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHV01000068.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 19743 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 19682 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 19621 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 19560 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 19499 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 19438 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 19377 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 19316 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 19255 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 19194 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 19133 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 19072 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 19011 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 18950 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 18889 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 18828 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 18766 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 18705 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 18644 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 18583 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 18522 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 18461 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 18400 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 18339 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 18278 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 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 [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], // Array 1 110958-110623 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDHV01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STM45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 110957 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 110896 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 110835 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 110774 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 110713 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 110652 29 96.6 0 A............................ | A [110625] ========== ====== ====== ====== ============================= ================================ ================== 6 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TACCGAGACCGTGTCTCGACGCCAGATTT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-23.3]%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], //