Array 1 8552-9068 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNX01000158.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001378 CFSAN001378_contig0157, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8552 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 8613 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 8674 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 8735 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 8796 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 8857 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 8918 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 8979 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 9040 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTTGCCGTATCTTCGATCATACCGGAACGGT # 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 [70.0-26.7]%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 39-1473 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNX01000355.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001378 CFSAN001378_contig0354, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 39 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 100 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 161 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 222 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 283 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 344 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 405 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 466 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 527 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 588 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 649 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 710 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 771 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 832 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG C [841] 894 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 955 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 1016 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 1077 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 1138 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 1199 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 1260 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 1321 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 1383 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1444 29 96.6 0 ............T................ | A [1471] ========== ====== ====== ====== ============================= ================================= ================== 24 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAACCGATGGAGCGCGGTGGTTACATCGGCGTTCCGGAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGC # 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: R [25.0-48.3]%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 1 317-44 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNX01000083.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001378 CFSAN001378_contig0082, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 316 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 255 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 194 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 133 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 72 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGAGGGTCGGTGCGCGGTATTAAAACACGCTATGTGTTCCCCGC # 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 [30.0-70.0]%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 2 17517-16940 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNX01000083.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001378 CFSAN001378_contig0082, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17516 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 17455 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 17394 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 17333 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 17272 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 17211 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 17150 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 17089 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 17028 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 16967 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTGGTTGGCAAGAGACTTACTGGCCATCACCAACTAGTCATG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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: F [63.3-36.7]%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], //