Array 1 197651-195119 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWRE01000005.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001372 contig00005, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 197650 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 197589 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 197528 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 197467 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 197406 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 197345 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 197284 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 197223 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 197162 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 197101 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 197040 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 196979 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 196918 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 196857 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 196796 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 196735 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 196674 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 196613 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 196552 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 196491 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 196430 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 196369 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 196308 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 196247 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 196186 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 196125 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 196064 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 196003 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 195942 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 195881 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 195820 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 195759 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 195698 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 195637 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 195576 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 195515 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 195454 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 195393 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 195332 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 195271 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 195209 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 195148 29 96.6 0 ............T................ | A [195121] ========== ====== ====== ====== ============================= ================================= ================== 42 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 214849-214272 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWRE01000005.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001372 contig00005, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 214848 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 214787 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 214726 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 214665 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 214604 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 214543 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 214482 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 214421 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 214360 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 214299 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TAAACCGTATGAGTTTTCAACATCACCAACTAGTCATG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGCG # 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 [63.3-41.7]%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], // Array 1 115823-116400 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWRE01000008.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001372 contig00008, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 115823 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 115884 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 115945 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 116006 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 116067 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 116128 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 116189 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 116250 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 116311 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 116372 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : CTACCAGGCCCGTTTGTCTCAACCATGACCAGGTGTTCCC # 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 [70.0-28.3]%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], //