Array 1 1138-11 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNN01000001.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001368 contig00001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1137 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 1076 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 1015 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 954 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 893 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 832 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 771 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 710 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 649 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 588 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 527 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 466 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 405 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 344 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 283 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 222 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 161 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 100 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 39 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGTCGGGATCT # 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 [6.7-70.0]%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 2 19070-17761 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNN01000001.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001368 contig00001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 19069 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 19008 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 18947 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 18886 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 18825 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 18764 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 18703 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 18642 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 18581 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 18520 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 18459 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 18398 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 18337 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 18276 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 18215 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 18154 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 18093 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 18032 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 17971 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 17910 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 17849 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 17788 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 21-1334 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNN01000007.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001368 contig00007, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 21 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 82 29 93.1 34 ..........................A.C GGCGCGCCAGTTGCTGAGGGTAAACCGGCGATTA 145 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 206 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 267 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 328 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 389 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 450 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 511 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 572 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 633 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 694 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 755 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 816 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 877 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 938 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 999 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 1060 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 1121 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 1182 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 1244 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1305 29 96.6 0 ............T................ | A [1332] ========== ====== ====== ====== ============================= ================================== ================== 22 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATATTAATGATTATAAATATG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [2-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [31.7-48.3]%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], //