Array 1 291352-292478 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHQX01000047.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA15 UGA15_Contig47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 291352 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 291413 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 291474 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 291535 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 291596 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 291657 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 291718 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 291779 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 291840 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 291901 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 291963 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 292024 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 292085 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 292146 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 292207 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 292268 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 292329 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 292390 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 292451 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 19 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 308611-310026 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHQX01000047.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA15 UGA15_Contig47, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 308611 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 308672 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 308734 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 308795 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 308856 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 308917 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 308978 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 309039 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 309100 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 309161 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 309222 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 309283 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 309344 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 309406 29 100.0 74 ............................. AATAAGGCGCGGTACCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 309509 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 309570 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 309631 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 309692 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 309753 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 309814 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 309875 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 309936 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 309997 29 96.6 0 A............................ | A [310023] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [1-3] 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], //