Array 1 424517-426069 **** Predicted by CRISPRDetect 2.4 *** >NZ_CGGH01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH15 isolate CH15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 424517 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 424578 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 424639 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 424700 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 424761 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 424822 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 424883 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 424944 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 425005 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 425066 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 425127 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 425188 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 425249 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 425310 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 425371 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 425432 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 425493 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 425554 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 425615 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 425676 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 425737 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 425798 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 425859 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 425920 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 425981 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 426042 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 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 [0-9] 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 442202-442841 **** Predicted by CRISPRDetect 2.4 *** >NZ_CGGH01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH15 isolate CH15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 442202 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 442263 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 442324 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 442385 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 442446 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 442507 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 442568 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 442629 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 442690 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 442751 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 442812 29 96.6 0 A............................ | A [442838] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAGTCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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], //