Array 1 787067-788619 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGU01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH16 isolate CH16, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 787067 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 787128 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 787189 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 787250 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 787311 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 787372 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 787433 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 787494 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 787555 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787616 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787677 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787738 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787799 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787860 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787921 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787982 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 788043 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 788104 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788165 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 788226 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 788287 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 788348 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 788409 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 788470 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 788531 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788592 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 804752-805391 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGU01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH16 isolate CH16, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804752 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804813 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804874 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 804935 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 804996 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 805057 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 805118 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 805179 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 805240 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 805301 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 805362 29 96.6 0 A............................ | A [805388] ========== ====== ====== ====== ============================= ================================ ================== 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], //