Array 1 46-1967 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJE01000005.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001382 contig00005, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 46 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 107 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 168 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 229 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 290 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 351 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 412 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 473 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 534 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 595 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 656 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 717 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 778 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 839 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 900 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 961 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 1022 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 1083 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 1144 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 1205 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 1266 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 1327 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 1388 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 1449 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 1510 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 1571 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 1632 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 1693 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 1754 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 1815 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 1877 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1938 29 96.6 0 ............T................ | A [1965] ========== ====== ====== ====== ============================= ================================= ================== 32 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGGGGATAAACCGCCAAAAACATTGAGTGCTTCTTGTACGTTCATG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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: NA [41.7-48.3]%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 1 184-33 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJE01000046.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001382 contig00046, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 183 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 122 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 61 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGCAGCTATCGATGAGATGAATAACGCGATTTA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [31.7-70.0]%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 194861-196169 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJE01000006.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001382 contig00006, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 194861 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 194922 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 194983 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 195044 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 195105 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 195166 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 195227 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 195288 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 195349 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 195410 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 195471 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 195532 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 195593 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 195654 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 195715 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 195776 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 195837 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 195898 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 195959 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 196020 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 196081 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 196142 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], // Array 1 304-31 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWJE01000057.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001382 contig00057, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 303 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 242 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 181 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 120 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 59 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGGGGATAAACCGTACACACCTAGCAATTAATTACGATTTTGTT # Right flank : GATTCGACGCTCAGGCCGTTCTCTTTTAACC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [25.0-46.7]%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], //