Array 1 946679-948048 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040700.1 Salmonella enterica subsp. enterica serovar Saintpaul strain 5 isolate CFSAN047351 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 946679 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 946740 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 946801 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 946862 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 946923 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 946984 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 947045 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 947106 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 947167 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 947228 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 947289 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 947350 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 947411 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 947472 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 947533 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 947594 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 947655 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 947716 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 947777 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 947838 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 947899 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 947960 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 948021 28 93.1 0 .......................-.G... | ========== ====== ====== ====== ============================= ================================ ================== 23 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATTAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%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 964308-965131 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040700.1 Salmonella enterica subsp. enterica serovar Saintpaul strain 5 isolate CFSAN047351 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 964308 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 964370 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 964431 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 964492 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 964553 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 964614 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 964675 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 964736 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 964797 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 964858 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCCTCCTGC 964919 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 964980 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 965041 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 965102 29 96.6 0 ............T................ | A [965129] ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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], //