Array 1 469482-470912 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYSU01000003.1 Salmonella enterica strain CVM 43829 43829_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 469482 29 100.0 32 ............................. CAACAGCGTCCCGTATTCTGTATCGTTGACGG 469543 29 100.0 32 ............................. CGCATTACTACCGGGATTAGTACCTATCAAAA 469604 29 100.0 32 ............................. GCAGACGCTGCCGTCCCCCCGCTCGACGCTGA 469665 29 100.0 32 ............................. CAGCGGGAAAACGTCCAAGTGCCCATATCCCC 469726 29 100.0 32 ............................. CCTTCAGAACATGCGCGGTATTATTTTTGACC 469787 29 100.0 32 ............................. CCGTGGAAAGAACCAGAACGCTGGATATTGGT 469848 29 100.0 32 ............................. ACCACATCAATGACCACATCACGCAGATATTA 469909 29 100.0 32 ............................. CGCCGTGTTTACTTCAATAGCGACGTTGTGAG 469970 29 100.0 32 ............................. AGGTTGACCATCGTCAGCTTCATAAAGATTTA 470031 29 100.0 32 ............................. GGCGTTATTGAGTGGGAAAAAATCGTAAGCGC 470092 29 100.0 32 ............................. ACGCTCTATAGCCATTAGGTGCGCCACCACTT 470153 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 470214 29 100.0 32 ............................. CAGCTCTCTAACGACTTCCCCGGAGTACGTAA 470275 29 100.0 32 ............................. CTTGTCGGCGTTGCTCACGTGACTATTTCGCA 470336 29 100.0 32 ............................. CGATAATTTATAAATTTTCGTCCACTCATCAA 470397 29 100.0 32 ............................. ACCGTTATCTGCTGGTTGATACTTCCCCGAGC 470458 29 100.0 32 ............................. CCGCAGAACGCCGCATCGCCGAACTGGACAAA 470519 29 100.0 32 ............................. TGCCGGTTTATCTGCTCCGGACCAATCGACTA 470580 29 96.6 32 ...................A......... CGCCGCCAGCTGGAAAAATGCCGCCTGTTAAT 470641 29 100.0 32 ............................. CTCCAGCCGACGCATTCGCTTGATCGCTTTAT 470702 29 100.0 32 ............................. GGGCTGGACCTCGATTTATTTAATACGTTTAT 470763 29 100.0 32 ............................. TCCCAACTCGTCAGGGCGGTTATCCAGCGCCA 470824 29 100.0 32 ............................. GTCACGAGGTCTGACGCGGATGTGATGAGTTA 470885 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 487172-487873 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYSU01000003.1 Salmonella enterica strain CVM 43829 43829_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 487172 29 100.0 33 ............................. TTGAGCACGACGAAATTTGGGTTTGATGCAGCC 487234 29 100.0 32 ............................. GTTATTCAGTTTATTAAATTTTTCCGCCAAGT 487295 29 100.0 32 ............................. CAACTGTATTTTGCGTTATTACGCTGAACCAG 487356 29 100.0 32 ............................. CCGAGGTCGGAGCGGATTGACTTAAACGGCAA 487417 29 100.0 32 ............................. TGCAACAGCAACAGGAGAGAATGCGGCAGCGT 487478 29 100.0 32 ............................. CGTCAGTTGCTGGAACTGGGGCACGATCTGGT 487539 29 100.0 32 ............................. GAGCGGCTAAACGATGAATTAACCAGGGAGCG 487600 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 487661 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 487722 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 487783 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 487844 29 96.6 0 ............T................ | A [487871] ========== ====== ====== ====== ============================= ================================= ================== 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], //