Array 1 165954-165149 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3166 2017-SEQ-0216_5_length_282347_cov_92.0182, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 165953 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 165892 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 165831 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 165770 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 165709 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 165647 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 165544 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 165483 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165422 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 165361 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165300 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 165239 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 165178 29 96.6 0 A............................ | A [165151] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 184250-182086 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3166 2017-SEQ-0216_5_length_282347_cov_92.0182, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 184249 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 184188 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 184127 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 184066 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 184005 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 183944 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 183883 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 183822 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 183761 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 183700 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 183639 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 183578 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 183517 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 183456 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 183395 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 183334 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 183273 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 183212 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 183151 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 183090 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 183029 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 182968 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 182907 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 182846 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 182785 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 182724 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 182663 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 182601 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 182540 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 182479 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 182418 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 182357 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 182296 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 182235 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 182174 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 182113 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [12-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //