Array 1 88309-89739 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIT01000003.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N46847 N46847_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88309 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 88370 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 88431 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 88492 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 88553 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 88614 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 88675 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 88736 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 88797 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 88858 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 88919 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 88980 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 89041 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 89102 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 89163 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 89224 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 89285 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 89346 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 89407 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 89468 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 89529 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 89590 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 89651 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 89712 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 105999-106700 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIT01000003.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N46847 N46847_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 105999 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 106061 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 106122 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 106183 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 106244 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 106305 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 106366 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 106427 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 106488 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 106549 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 106610 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 106671 29 96.6 0 ............T................ | A [106698] ========== ====== ====== ====== ============================= ================================= ================== 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], //