Array 1 31553-30564 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCPV01000072.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PRK855 TYPHIMURIUM_S2_trimmed_contig_83, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 31552 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 31491 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 31429 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 31368 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 31307 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 31246 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 31185 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 31124 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 31062 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 30959 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 30898 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 30837 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 30776 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 30715 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 30654 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 30593 29 96.6 0 A............................ | A [30566] ========== ====== ====== ====== ============================= ========================================================================== ================== 16 29 99.4 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.18, 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 [3-1] 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 1 56-1426 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCPV01000153.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PRK855 TYPHIMURIUM_S2_trimmed_contig_182, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 56 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 117 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 178 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 239 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 300 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 361 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 422 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 483 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 544 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 605 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 666 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 727 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 849 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 910 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 971 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1032 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1093 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 1154 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1216 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1277 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1338 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1399 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCGCGCCAGCGGGGATAAACCGTTATCCCAATATATTTCGCTATCAGTTACATCG # 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [46.7-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //