Array 1 5431-6861 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDY01000024.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N43461 N43461_contig_24, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5431 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 5492 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 5553 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 5614 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 5675 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 5736 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 5797 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 5858 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 5919 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 5980 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 6041 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 6102 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 6163 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 6224 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 6285 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 6346 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 6407 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 6468 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 6529 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 6590 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 6651 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 6712 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 6773 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 6834 28 93.1 0 .......................-.G... | ========== ====== ====== ====== ============================= ================================ ================== 24 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 23121-23822 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDY01000024.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N43461 N43461_contig_24, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 23121 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 23183 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 23244 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 23305 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 23366 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 23427 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 23488 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 23549 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 23610 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 23671 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 23732 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 23793 29 96.6 0 ............T................ | A [23820] ========== ====== ====== ====== ============================= ================================= ================== 12 29 99.7 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], //