Array 1 422406-423958 **** Predicted by CRISPRDetect 2.4 *** >NZ_CIJD01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH38 isolate CH38, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 422406 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 422467 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 422528 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 422589 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 422650 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 422711 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 422772 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 422833 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 422894 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 422955 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 423016 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 423077 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 423138 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 423199 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 423260 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 423321 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 423382 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 423443 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 423504 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 423565 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 423626 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 423687 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 423748 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 423809 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 423870 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 423931 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 440091-440730 **** Predicted by CRISPRDetect 2.4 *** >NZ_CIJD01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH38 isolate CH38, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 440091 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 440152 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 440213 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 440274 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 440335 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 440396 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 440457 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 440518 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 440579 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 440640 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 440701 29 96.6 0 A............................ | A [440727] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] 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], //