Array 1 804-43 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJD01000195.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001365 CFSAN001365_contig0194, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 803 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 742 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 681 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 620 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 559 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 498 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 437 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 376 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 315 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 254 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 193 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 132 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 71 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 13 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GCCTGGAATGGTTTAACGGTGCAATCCAGGATAGTGTTCCCCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [33.3-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 92001-90687 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJD01000007.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001365 CFSAN001365_contig0006, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 92000 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC G [91979] 91938 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 91877 29 100.0 33 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATCG 91815 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 91754 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 91693 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 91632 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 91571 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 91510 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 91449 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 91388 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 91327 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 91266 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 91205 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 91144 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 91083 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 91022 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 90961 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 90900 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 90839 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 90777 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 90716 29 96.6 0 ............T................ | A [90689] ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TAAATA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-11.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 2165-3472 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJD01000088.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001365 CFSAN001365_contig0087, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2165 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 2226 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 2287 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 2348 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 2409 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 2470 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 2531 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 2592 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 2653 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 2714 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 2775 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 2836 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 2897 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 2958 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 3019 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 3080 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 3141 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 3202 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 3263 29 100.0 31 ............................. GATGATCGTTTTTTCGTTACGTCGCGCAAAT 3323 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 3384 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 3445 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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], //