Array 1 48-565 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNZ01000201.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001370 CFSAN001370_contig0200, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 48 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 109 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 170 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 231 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 292 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT C [301] 354 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 415 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 476 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 537 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGCGGGGATAAACCGCAGTTTGAAGAGCGCGCCCGACAGGAATATGAG # Right flank : TTTGCGACATTTAT # 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 [35.0-16.7]%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 1 490-34 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNZ01000079.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001370 CFSAN001370_contig0078, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 489 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 428 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 367 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 306 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 245 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 184 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 123 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 62 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GCGAGTCAACAGCGGTAGCCATTGCAGGCATTTG # 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 [25.0-70.0]%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 1-1002 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNZ01000076.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001370 CFSAN001370_contig0075, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 27 93.1 33 --........................... CCTGCCGTACGCCGTCGCCATATCCGGCGCTGT 61 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 122 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 183 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 244 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 305 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 366 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 427 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 488 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 549 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 610 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 671 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 732 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 793 29 100.0 31 ............................. GATGATCGTTTTTTCGTTACGTCGCGCAAAT 853 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 914 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 975 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [1-3] 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 2 17625-18202 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNZ01000076.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001370 CFSAN001370_contig0075, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17625 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 17686 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 17747 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 17808 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 17869 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 17930 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 17991 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 18052 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 18113 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 18174 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TACACACCTAG # 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 37-1167 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNZ01000091.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001370 CFSAN001370_contig0090, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 37 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG G,A [54,61] 100 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 161 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 222 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 283 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 344 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 405 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 466 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 527 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 588 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 649 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 710 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 771 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 832 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 893 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 954 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 1015 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 1077 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1138 29 96.6 0 ............T................ | A [1165] ========== ====== ====== ====== ============================= ================================= ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGCCAGCTCAATTTCGCCAACCTTCGCGCTAATGG # 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: NA [2-2] Score: 0/0.41 # AT richness analysis in flanks prediction: R [26.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //