Array 1 647168-648781 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGW01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH19 isolate CH19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 647168 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 647229 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 647290 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 647351 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 647412 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 647473 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 647534 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 647595 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 647656 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 647717 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 647778 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 647839 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 647900 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 647961 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 648022 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 648083 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 648144 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 648205 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 648266 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 648327 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 648388 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 648449 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 648510 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 648571 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 648632 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 648693 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 648754 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-8] 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 664914-665553 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGW01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH19 isolate CH19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 664914 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 664975 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 665036 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 665097 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 665158 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 665219 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 665280 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 665341 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 665402 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 665463 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 665524 29 96.6 0 A............................ | A [665550] ========== ====== ====== ====== ============================= ================================ ================== 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], //