Array 1 422412-423964 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGT01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH27 isolate CH27, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 422412 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 422473 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 422534 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 422595 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 422656 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 422717 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 422778 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 422839 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 422900 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 422961 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 423022 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 423083 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 423144 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 423205 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 423266 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 423327 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 423388 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 423449 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 423510 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 423571 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 423632 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 423693 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 423754 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 423815 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 423876 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 423937 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 440097-440736 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGT01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH27 isolate CH27, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 440097 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 440158 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 440219 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 440280 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 440341 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 440402 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 440463 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 440524 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 440585 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 440646 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 440707 29 96.6 0 A............................ | A [440733] ========== ====== ====== ====== ============================= ================================ ================== 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], //