Array 1 473768-475077 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTW01000002.1 Salmonella enterica strain CFSAN071943 CFSAN071943_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 473768 29 100.0 32 ............................. CCTTCGTTATTTACGACATTAACATTAACCGT 473829 29 100.0 32 ............................. CTTAATGCTTTTTCGTCCGCCCATAGAAATAA 473890 29 96.6 33 ...................A......... GTATCAAAGGTCATCAGGTGTTCGCCTTTCAGC 473952 29 96.6 32 ............................A GCAGATTGGTATCTGGTACGACGACTGCCGCC 474013 29 100.0 32 ............................. ACTGTTAAAATGCTTCAGGACGGTGAAGTAAA 474074 29 100.0 32 ............................. TCCACTGTACCGCCGACAGGACTTTTTAACGT 474135 29 100.0 32 ............................. CGCAGGCGCTGGACGCGCTGCACAGACAGTCC 474196 29 100.0 32 ............................. GTGCGGTCGAGGTGGCGAGGTTGATAGCAGTA 474257 29 100.0 32 ............................. CGAATATGTTGATCGGGATTCTGGCCGCACTG 474318 29 100.0 32 ............................. CGTTTATCGCTCTGAGAGTGGCGCTCGTTACT 474379 29 100.0 32 ............................. GCGCTGACCATGATTGCAGTCAGGGTCGGCAT 474440 29 100.0 32 ............................. GGGGAATGATGAAACGAATTAGTAAAAACAAA 474501 29 100.0 32 ............................. AAATGGCATAGCCACCCCAGACAGTGGCTTCT 474562 29 100.0 32 ............................. GACCGATCCGGGAACAACCGGAACAACGCGGG 474623 29 100.0 32 ............................. CCAGTAACGCTGGCGTGATAATTTTGGTCGCC 474684 29 100.0 32 ............................. CAATACGACTGGACTGGATTTGATTCATTAAC 474745 29 100.0 32 ............................. CAGAGCCTGGAGCTCTCGACTCCTGATTTTGG 474806 29 100.0 32 ............................. GGGTAACGTCCTTTGCTGGTGTTTTTGTGTCT 474867 29 100.0 32 ............................. AAACACCAACATTACGGCACGCAAGAGGTTAT 474928 29 96.6 32 ........T.................... GTTGGAGGGCGGTTCTGATGGCGAAACTTATC 474989 29 100.0 32 ............................. TACCAACAATTCAGCGTTACGCCAACGGTAAC 475050 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCGGATAAATTTTTCCATAGCGATGCATGGATCACACTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [2-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 484841-485541 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUTW01000002.1 Salmonella enterica strain CFSAN071943 CFSAN071943_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 484841 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 484902 29 100.0 32 ............................. GCGTTCTACAGTAAGGTTTACAGCCTGAGCAA 484963 29 100.0 32 ............................. GTACGGAAATTTGTGTCAGATATTGCCGGGAA 485024 29 100.0 32 ............................. TGCCCACAGTTCGTCGTGAATTGCGCAGGATA 485085 29 100.0 32 ............................. GTTCTCAATAAATTTTCCCGGCTGCCGGATCT 485146 29 100.0 32 ............................. ATTGGGACCATTCCAATGGTCAGTTTCACGGA 485207 29 100.0 32 ............................. AAACCAGAATTGCTGAAGTAAATTGCAAAAGA 485268 29 100.0 32 ............................. ATATCGAACGGGTTACGGCTGTCGGTGTAACT 485329 29 96.6 32 ............T................ ATATTTTGGCAACTCGTCGTACATTATCGCCA 485390 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 485451 29 100.0 32 ............................. TCTTTGTGGTAAATATGGAATCGATTAACCCC 485512 29 100.0 0 ............................. | A [485539] ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGCAGCGTAGATATTGGCTGGCTACATAGTGAAGAGGCGTGTCTTGAACATATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAAGGTCGTCGCCACGGAAAACCTTTTACTCTTCCATAGTCGCTTTGCTTTTCACGATCGTCAGCGGATTGAGTCGCAGACGCTGAATCTCTTTGGCAAACAGAGCGGCGCGCAACGTGCCGGTAAGGTCATTATCGCCACGCAGGTCATCGAACAAAGTCTGGATATTGACTGCGATGAGATGATCTCTGATTTAGCGCCGGTGGATTTATTAATTCAGCGGGCCGGTCGACTACAGCGTCATATTCGCGATCGTAACGGTCTGGTGAAAAAGAGTGGGCAGGATGAGCGAGAGACGCTAGTGCTGCGCATTCTTGC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-48.3]%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], //