Array 1 404-8 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNH01000151.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001383 contig00151, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 403 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 342 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 281 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 220 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 159 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG C [154] 97 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 36 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAAACATTGAGTGCTTCTTGTACGTTCA # Right flank : GCGAGTCA # 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 [5.0-31.7]%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], // Array 1 121580-121975 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNH01000007.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001383 contig00007, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 121580 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 121641 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 121702 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 121763 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 121824 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 121885 29 100.0 33 ............................. CCTGCCGTACGCCGTCGCCATATCCGGCGCTGT 121947 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GGCCACTTATCAGCAAACCGGGCATCCAGAACGTG # 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 [70.0-25.0]%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 42-1413 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNH01000098.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001383 contig00098, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ============================================================================================= ================== 42 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 103 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 164 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 225 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 286 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 347 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 408 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 469 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 530 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 591 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 652 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 713 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 774 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 835 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 896 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 957 29 100.0 93 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGAGTGTTCCCCGNGCCAGCGGGGATAAACCGATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 1079 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 1140 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 1201 29 100.0 31 ............................. AGCAATGATTGAAAAGCTGGCGATAACAAGG 1261 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 1323 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 1384 29 96.6 0 ............T................ | A [1411] ========== ====== ====== ====== ============================= ============================================================================================= ================== 22 29 99.8 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATAAACCGGTCGGGATCTCGACCTTTTCAATTTCTTCTATG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.22, 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 [40.0-48.3]%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 5-765 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNH01000071.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001383 contig00071, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5 29 100.0 33 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCACG 67 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 128 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 189 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 250 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 311 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 372 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 433 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 494 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 555 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 616 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 677 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 738 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 13 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGGTG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-63.3]%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 2 17387-18026 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRNH01000071.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001383 contig00071, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17387 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 17448 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 17509 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 17570 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 17631 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 17692 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 17753 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 17814 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 17875 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 17936 29 100.0 33 ............................. TACACACCTAGCAATTAATTACGATTTTTGTTT 17998 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 11 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GAGGGTCGGTGCGCGGTATTAAAAACACGCTAT # 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], //