Array 1 16171-17647 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHFE010000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST-08 NODE_6_length_168117_cov_4.549932, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 16171 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16232 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 16294 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 16355 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 16416 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 16477 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 16538 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 16599 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 16660 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 16721 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 16782 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 16843 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 16904 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 16966 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 17069 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 17130 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 17191 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 17252 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 17313 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 17374 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 17435 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 17496 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 17557 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 17618 29 96.6 0 A............................ | A [17644] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 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], // Array 1 1587-32 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAEHFE010000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST-08 NODE_13_length_89962_cov_4.854723, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1586 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1525 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1464 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1403 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1342 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1281 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1220 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1159 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1098 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1037 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 976 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 915 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 854 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 793 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 732 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 671 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 610 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 549 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 487 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 426 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 365 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 304 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 243 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 182 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 121 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 60 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GCGTTCATCGGCAGCGTCACGCAATATGAAGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [25.0-70.0]%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], //