Array 1 425362-426426 **** Predicted by CRISPRDetect 2.4 *** >NZ_QAQZ01000002.1 Salmonella enterica subsp. enterica strain CFSAN058494 SRR6921402_NODE_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 425362 29 96.6 32 ..A.......................... GCCTCAGCATTGTCATAACCCCACGCCTGGCA 425423 29 96.6 32 ..A.......................... TCCGGGGAAAGAACTCGCCTCGTCCAGCGTCA 425484 29 96.6 32 ..A.......................... GCAATATGAATAACAACGTACCACTCATCGCA 425545 29 96.6 32 ..A.......................... GAGCACTTTTACTGTAGGACTTGTATGAATCT 425606 29 96.6 32 ..A.......................... CGGCCGTAGCGCCGCTCAGTCCGGGGGATGGT 425667 29 93.1 32 ..A........A................. CAATTGCGTTCTTGCTTATGCCCAGCGACTTA 425728 29 96.6 32 ............T................ ATTTCAAACACTCCGGGTCTGCCAGCGCCTCA 425789 29 100.0 32 ............................. CGGCGGCGGACGCCGCTCAGATAGCCAAAACC 425850 29 100.0 32 ............................. CGTTTTTTTTATTTGTACTATTGTCAGTACCC 425911 29 100.0 32 ............................. CGGAAACAAACAAAGTTTTGCGCGATTCCACC 425972 29 100.0 32 ............................. CACCAGGTAACAATATCGTCCCCGACCTTTAT 426033 29 100.0 32 ............................. GCGAAATTCCCCAGATACCGCGCATCGGCACT 426094 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 426155 29 96.6 32 ............T................ CTCGGGGATTTTGTGCCACCCAAAACGCTCGC 426216 29 96.6 32 ............T................ TTGCCACAACCACAATGGATCAGGAGCAATTA 426277 29 96.6 32 ............T................ GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 426338 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 426399 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 18 29 97.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATTATAGTCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,3] 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 [-3.90,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-63.3]%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 443187-444192 **** Predicted by CRISPRDetect 2.4 *** >NZ_QAQZ01000002.1 Salmonella enterica subsp. enterica strain CFSAN058494 SRR6921402_NODE_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 443187 29 100.0 32 ............................. TGAACGAAATCTGGATCACCGAGGGCATTTTC 443248 29 100.0 32 ............................. ATTTGCGGATCACCTGTCATAACCGCATTCTC 443309 29 96.6 32 ............................T TACGGGTGGCATACGACAGCACAGCGCGTACC 443370 29 100.0 32 ............................. CCCGTCCACTGCTGGATGAAATGATGGAATGT 443431 29 100.0 32 ............................. GGCACGACGCACCTGCTAAAAAATACTACCGC 443492 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 443553 29 100.0 32 ............................. CGCCAGCGCTGAGGTGAATTTTAACGGTGTCA 443614 29 100.0 32 ............................. AAACAACTCTGTCTATTTTATGAATAGTTAAA 443675 29 100.0 32 ............................. CGCGCAACATTCATTACTGCCCACTATTCAGA 443736 29 100.0 32 ............................. AACGCGCCGCCTTAGAAAAACAGCGAGGGGAT 443797 29 100.0 32 ............................. CGTCCTGTACGTGGTAGCGATAATCGTAATAA 443858 29 100.0 32 ............................. ACGCTGAAAAACGATATTTCGCTGACCTATGC 443919 29 100.0 32 ............................. GCTGATACGCAGACGATCACAAACTATATGGG 443980 29 93.1 32 ...........................TT TAATCATTTTGTTTAAATCCCGGATCACCTCC 444041 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 444102 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 444163 29 96.6 0 ............T................ | A [444190] ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTATTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTAGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-4] 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], //