Array 1 469488-470918 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUF01000010.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N29369 N29369_contig_10, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 469488 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 469549 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 469610 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 469671 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 469732 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 469793 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 469854 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 469915 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 469976 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 470037 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 470098 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 470159 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 470220 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 470281 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 470342 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 470403 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 470464 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 470525 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 470586 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 470647 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 470708 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 470769 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 470830 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 470891 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 1 1258-1959 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUF01000024.1 Salmonella enterica subsp. enterica serovar Saintpaul strain CVM N29369 N29369_contig_24, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1258 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 1320 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 1381 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 1442 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 1503 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 1564 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 1625 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 1686 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 1747 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 1808 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 1869 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1930 29 96.6 0 ............T................ | A [1957] ========== ====== ====== ====== ============================= ================================= ================== 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], //