Array 1 221953-220947 **** Predicted by CRISPRDetect 2.4 *** >NZ_QARV01000002.1 Salmonella enterica subsp. enterica strain CFSAN058602 SRR6919510_NODE_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 221952 29 100.0 32 ............................. TGAACGAAATCTGGATCACCGAGGGCATTTTC 221891 29 100.0 32 ............................. ATTTGCGGATCACCTGTCATAACCGCATTCTC 221830 29 96.6 32 ............................T TACGGGTGGCATACGACAGCACAGCGCGTACC 221769 29 100.0 32 ............................. CCCGTCCACTGCTGGATGAAATGATGGAATGT 221708 29 100.0 32 ............................. GGCACGACGCACCTGCTAAAAAATACTACCGC 221647 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 221586 29 100.0 32 ............................. CGCCAGCGCTGAGGTGAATTTTAACGGTGTCA 221525 29 100.0 32 ............................. AAACAACTCTGTCTATTTTATGAATAGTTAAA 221464 29 100.0 32 ............................. CGCGCAACATTCATTACTGCCCACTATTCAGA 221403 29 100.0 32 ............................. AACGCGCCGCCTTAGAAAAACAGCGAGGGGAT 221342 29 100.0 32 ............................. CGTCCTGTACGTGGTAGCGATAATCGTAATAA 221281 29 100.0 32 ............................. ACGCTGAAAAACGATATTTCGCTGACCTATGC 221220 29 100.0 32 ............................. GCTGATACGCAGACGATCACAAACTATATGGG 221159 29 93.1 32 ...........................TT TAATCATTTTGTTTAAATCCCGGATCACCTCC 221098 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 221037 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 220976 29 96.6 0 ............T................ | A [220949] ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTATTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTAGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [4-1] 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 2 239778-238713 **** Predicted by CRISPRDetect 2.4 *** >NZ_QARV01000002.1 Salmonella enterica subsp. enterica strain CFSAN058602 SRR6919510_NODE_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 239777 29 96.6 32 ..A.......................... GCCTCAGCATTGTCATAACCCCACGCCTGGCA 239716 29 96.6 32 ..A.......................... TCCGGGGAAAGAACTCGCCTCGTCCAGCGTCA 239655 29 96.6 32 ..A.......................... GCAATATGAATAACAACGTACCACTCATCGCA 239594 29 96.6 32 ..A.......................... GAGCACTTTTACTGTAGGACTTGTATGAATCT 239533 29 96.6 32 ..A.......................... CGGCCGTAGCGCCGCTCAGTCCGGGGGATGGT 239472 29 93.1 32 ..A........A................. CAATTGCGTTCTTGCTTATGCCCAGCGACTTA 239411 29 96.6 32 ............T................ ATTTCAAACACTCCGGGTCTGCCAGCGCCTCA 239350 29 100.0 32 ............................. CGGCGGCGGACGCCGCTCAGATAGCCAAAACC 239289 29 100.0 32 ............................. CGTTTTTTTTATTTGTACTATTGTCAGTACCC 239228 29 100.0 32 ............................. CGGAAACAAACAAAGTTTTGCGCGATTCCACC 239167 29 100.0 32 ............................. CACCAGGTAACAATATCGTCCCCGACCTTTAT 239106 29 100.0 32 ............................. GCGAAATTCCCCAGATACCGCGCATCGGCACT 239045 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 238984 29 96.6 32 ............T................ CTCGGGGATTTTGTGCCACCCAAAACGCTCGC 238923 29 96.6 32 ............T................ TTGCCACAACCACAATGGATCAGGAGCAATTA 238862 29 96.6 32 ............T................ GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 238801 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 238740 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 18 29 97.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATTATAGTCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.52 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.41, # 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 : TTCCCCGCGTCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [3,5] 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 [-2.30,-3.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [4-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-66.7]%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], //