Array 1 1-1064 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWIT01000016.1 Salmonella enterica subsp. enterica serovar Tennessee strain MOD1_SALC_29 contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 ...-......................... CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 61 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 122 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 183 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 244 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 305 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 366 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 427 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 488 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 549 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 610 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 671 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 732 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 793 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 854 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 915 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 976 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 1037 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # 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 [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 17688-20219 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWIT01000016.1 Salmonella enterica subsp. enterica serovar Tennessee strain MOD1_SALC_29 contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17688 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 17749 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 17810 29 100.0 32 ............................. GCAGCTATCGATGAGATGAATAACGCGATTTA 17871 29 100.0 32 ............................. TACACACCTAGCAATTAATTACGATTTTGTTT 17932 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 17993 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 18054 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 18115 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 18176 29 100.0 32 ............................. ATTCGACGCTCAGGCCGTTCTCTTTTAACCGG 18237 29 100.0 32 ............................. CCAAAAACATTGAGTGCTTCTTGTACGTTCAT 18298 29 100.0 32 ............................. CAGTTTGAAGAGCGCGCCCGACAGGAATATGA 18359 29 100.0 32 ............................. TTACAGACCGCTCATTTGTTATAAATATGTTG 18420 29 100.0 32 ............................. CCTGGAATGGTTTAACGGTGCAATCCAGGATA 18481 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC 18542 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 18603 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 18664 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 18725 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 18786 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 18847 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 18908 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 18969 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 19030 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 19091 29 100.0 32 ............................. TCCGTCTCCGCCAACGCCTTTAGCCCATCCAG 19152 29 100.0 32 ............................. CTCTTTGATCTCTCCGTTTGCCGTTGAGTGGT 19213 29 100.0 32 ............................. TTGACCGGACTCGCGGTTATTCAACTAACCGT 19274 29 100.0 32 ............................. TAGAATAATTGTGTTTTTGCTACCAATGGTTG 19335 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 19396 29 100.0 32 ............................. CAGGCATAACTACACCTGTCAGGAGCCAATTA 19457 29 100.0 32 ............................. TGGTTACGTATACGCCAGATTCAGAAAAGGCC 19518 29 100.0 32 ............................. ATTCAAAAATTCAATATGAGGTTGGAAATTTT 19579 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 19640 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 19701 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 19762 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 19823 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 19884 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 19945 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 20006 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 20067 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 20129 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 20190 29 96.6 0 ............T................ | A [20217] ========== ====== ====== ====== ============================= ================================= ================== 42 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 340418-340934 **** Predicted by CRISPRDetect 2.4 *** >NZ_LWIT01000004.1 Salmonella enterica subsp. enterica serovar Tennessee strain MOD1_SALC_29 contig0003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 340418 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 340479 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 340540 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 340601 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 340662 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 340723 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 340784 29 100.0 32 ............................. GGCCCCCCATCCCAAAACCGGGCATCCACACC 340845 28 89.7 32 ..............C.......-.C.... CGCGTCAACAGCGGCACCCCTTGCAGGCATCT C [340864] 340906 29 75.9 0 ..C.C............CA...GC....C | ========== ====== ====== ====== ============================= ================================ ================== 9 29 96.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GGCGG # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //