Array 1 221403-220397 **** Predicted by CRISPRDetect 2.4 *** >NZ_QART01000002.1 Salmonella enterica subsp. enterica strain CFSAN058604 SRR6919815_NODE_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 221402 29 100.0 32 ............................. TGAACGAAATCTGGATCACCGAGGGCATTTTC 221341 29 100.0 32 ............................. ATTTGCGGATCACCTGTCATAACCGCATTCTC 221280 29 96.6 32 ............................T TACGGGTGGCATACGACAGCACAGCGCGTACC 221219 29 100.0 32 ............................. CCCGTCCACTGCTGGATGAAATGATGGAATGT 221158 29 100.0 32 ............................. GGCACGACGCACCTGCTAAAAAATACTACCGC 221097 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 221036 29 100.0 32 ............................. CGCCAGCGCTGAGGTGAATTTTAACGGTGTCA 220975 29 100.0 32 ............................. AAACAACTCTGTCTATTTTATGAATAGTTAAA 220914 29 100.0 32 ............................. CGCGCAACATTCATTACTGCCCACTATTCAGA 220853 29 100.0 32 ............................. AACGCGCCGCCTTAGAAAAACAGCGAGGGGAT 220792 29 100.0 32 ............................. CGTCCTGTACGTGGTAGCGATAATCGTAATAA 220731 29 100.0 32 ............................. ACGCTGAAAAACGATATTTCGCTGACCTATGC 220670 29 100.0 32 ............................. GCTGATACGCAGACGATCACAAACTATATGGG 220609 29 93.1 32 ...........................TT TAATCATTTTGTTTAAATCCCGGATCACCTCC 220548 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 220487 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 220426 29 96.6 0 ............T................ | A [220399] ========== ====== ====== ====== ============================= ================================ ================== 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 239228-238163 **** Predicted by CRISPRDetect 2.4 *** >NZ_QART01000002.1 Salmonella enterica subsp. enterica strain CFSAN058604 SRR6919815_NODE_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 239227 29 96.6 32 ..A.......................... GCCTCAGCATTGTCATAACCCCACGCCTGGCA 239166 29 96.6 32 ..A.......................... TCCGGGGAAAGAACTCGCCTCGTCCAGCGTCA 239105 29 96.6 32 ..A.......................... GCAATATGAATAACAACGTACCACTCATCGCA 239044 29 96.6 32 ..A.......................... GAGCACTTTTACTGTAGGACTTGTATGAATCT 238983 29 96.6 32 ..A.......................... CGGCCGTAGCGCCGCTCAGTCCGGGGGATGGT 238922 29 93.1 32 ..A........A................. CAATTGCGTTCTTGCTTATGCCCAGCGACTTA 238861 29 96.6 32 ............T................ ATTTCAAACACTCCGGGTCTGCCAGCGCCTCA 238800 29 100.0 32 ............................. CGGCGGCGGACGCCGCTCAGATAGCCAAAACC 238739 29 100.0 32 ............................. CGTTTTTTTTATTTGTACTATTGTCAGTACCC 238678 29 100.0 32 ............................. CGGAAACAAACAAAGTTTTGCGCGATTCCACC 238617 29 100.0 32 ............................. CACCAGGTAACAATATCGTCCCCGACCTTTAT 238556 29 100.0 32 ............................. GCGAAATTCCCCAGATACCGCGCATCGGCACT 238495 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 238434 29 96.6 32 ............T................ CTCGGGGATTTTGTGCCACCCAAAACGCTCGC 238373 29 96.6 32 ............T................ TTGCCACAACCACAATGGATCAGGAGCAATTA 238312 29 96.6 32 ............T................ GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 238251 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 238190 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], //