Array 1 3409-4046 **** Predicted by CRISPRDetect 2.4 *** >NZ_LROD01000127.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001352 CFSAN001352_contig0126, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3409 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 3470 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 3531 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 3592 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 3653 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 3714 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 3775 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 3836 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 3897 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 3958 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 4019 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 5518-6095 **** Predicted by CRISPRDetect 2.4 *** >NZ_LROD01000185.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001352 CFSAN001352_contig0184, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5518 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 5579 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 5640 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 5701 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 5762 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 5823 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 5884 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 5945 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 6006 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 6067 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TACACACCTA # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-10.0]%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], // Array 1 42-1048 **** Predicted by CRISPRDetect 2.4 *** >NZ_LROD01000257.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001352 CFSAN001352_contig0256, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 42 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 103 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 164 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 225 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 286 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 347 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 408 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 469 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 530 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 591 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 652 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 713 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 774 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 835 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 896 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 958 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1019 29 96.6 0 ............T................ | A [1046] ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATAAACCGCTCTTTGATCTCTCCGTTTGCCGTTGAGTGGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: R [35.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 36-611 **** Predicted by CRISPRDetect 2.4 *** >NZ_LROD01000301.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001352 CFSAN001352_contig0300, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 36 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 97 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 158 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 219 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 280 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 341 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 402 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 463 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 524 27 93.1 32 ........-...........-........ ACTTGCTTCATTGACATGCCTGCCACTGCTCC 583 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGTTACAGACCGCTCATTTGTTATAAATATGTTGG # Right flank : GCGCGCCATTGCTGAGGGATAAACCGCCAGCTCAATTTCGCCAACCTTCGCGCTAATGGTGTTCCC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [36.7-43.3]%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], //