Array 1 1-392 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRT01000080.1 Salmonella enterica strain CVM 43802 43802_contig_80, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 60 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 121 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 182 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 243 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 304 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 365 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 95.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.75, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.85, # 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 [-10.50,-8.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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 5345-6410 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRT01000086.1 Salmonella enterica strain CVM 43802 43802_contig_86, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5345 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 5406 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5467 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 5528 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5589 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5650 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5711 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5772 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5833 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5894 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5955 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6016 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6077 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6138 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6199 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6260 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6321 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 6382 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [70.0-36.7]%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], // Array 1 1078-2492 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYRT01000087.1 Salmonella enterica strain CVM 43802 43802_contig_87, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1078 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1139 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 1201 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 1262 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 1323 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 1384 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 1445 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 1506 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 1567 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 1628 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 1689 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 1750 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 1811 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1873 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 1934 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [1976] 1976 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2037 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2098 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2159 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2220 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2281 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2342 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2403 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2464 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.3 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAAATGTTCCCCGCGCCAGCGGG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-30.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //