Array 1 786489-788041 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGV01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH18 isolate CH18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 786489 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 786550 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 786611 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 786672 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 786733 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 786794 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 786855 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 786916 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 786977 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787038 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787099 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787160 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787221 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787282 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787343 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787404 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 787465 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 787526 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 787587 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 787648 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 787709 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 787770 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 787831 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 787892 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 787953 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788014 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 804174-804813 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGV01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH18 isolate CH18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804174 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804235 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804296 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 804357 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 804418 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 804479 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 804540 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 804601 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 804662 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 804723 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 804784 29 96.6 0 A............................ | A [804810] ========== ====== ====== ====== ============================= ================================ ================== 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], //