Array 1 1173417-1171187 **** Predicted by CRISPRDetect 2.4 *** >NZ_MDFE01000009.1 Listeria monocytogenes strain Lm99 contig000009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1173416 29 100.0 35 ............................. TCATTTAGAAATGAGTGGGAACGGTTTAGTGAAAA 1173352 29 100.0 36 ............................. TTCTTACTCTGTTTCAACATCTAAGGATAAAATCTC 1173287 29 100.0 37 ............................. TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG 1173221 29 100.0 36 ............................. TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC 1173156 29 100.0 36 ............................. CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG 1173091 29 100.0 36 ............................. AAGTTCAAAACCTCCCACACCCGCTATGAATAAATT 1173026 29 100.0 37 ............................. GTCTTTGCATTTGATGATGATTACTTTTTTAAAGTCT 1172960 29 100.0 35 ............................. ACGAGTATCAGCGCTAAAAGAGATTGTTAAGCGCC 1172896 29 100.0 36 ............................. TTAAGAACATAAGCTTCACTCTTTAAAGGGAGTAAA 1172831 29 100.0 37 ............................. AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC 1172765 29 100.0 37 ............................. TGCCGCAAAAACGTTGGGGAACGTTGTTCAAGGTATT 1172699 29 100.0 36 ............................. ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG 1172634 29 100.0 37 ............................. TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC 1172568 29 100.0 35 ............................. GTAACAAGTAGTGTTATACCTGCAACAATACCAGC 1172504 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 1172439 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 1172374 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 1172311 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 1172248 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 1172182 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 1172119 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 1172054 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 1171990 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 1171924 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 1171859 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTAGTT 1171795 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 1171732 29 100.0 35 ............................. AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAA 1171668 29 100.0 37 ............................. CAGTGATTATGCTAAGACCTACACAATCGTTATCACT 1171602 29 100.0 33 ............................. TAAGGTCATATAAGAAAAAATGTATTTTTTCCC 1171540 29 96.6 34 .......................C..... CAAGATATGCTAGAAATGGCGCAAATAGCGCGCG 1171477 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 1171412 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 1171346 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 1171282 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 1171216 29 93.1 0 .......................C....C | A [1171191] ========== ====== ====== ====== ============================= ===================================== ================== 35 29 99.7 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCCAAATCCAAGCCTTTTCCCACAACACCTAAACCAACAAAACCGCAACCAATGCCAAAACCGCCGGCAAGCCCTGTTTCACCAAAATCCCCTTAGAAGAAGTCGCTCCGCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCCGCAAATCCTGCTCCTGCGAAAAACAATCCCCACGCAAGCCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGGAGTTCTTTCTCGACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATAG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : GTTTTAACTACTTATTATGAAATGTAAAT # 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: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTAACTACTTATTATGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [65.0-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 1190304-1189687 **** Predicted by CRISPRDetect 2.4 *** >NZ_MDFE01000009.1 Listeria monocytogenes strain Lm99 contig000009, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1190303 29 100.0 35 ............................. TTGGATGCAAAAACTTTAATAGCCTCTGCATCAAG 1190239 29 100.0 34 ............................. AAATCAACGGGTAAATATTTACTCACAGAGCTTC 1190176 29 100.0 38 ............................. CTGGTCCTGTGCTGATGATTGGCGGAAAACTAGTAACA 1190109 29 100.0 35 ............................. GTTGAACTAGAAAAACTGCTTGCTTGGGTAGATGA 1190045 29 100.0 37 ............................. CATTTCAATAGCTTCCTTTGATGTAACATTAAGCTCA 1189979 29 100.0 37 ............................. AGCGGTGTAGACAAAATAACTACAATTAAATTTTCCG 1189913 29 100.0 37 ............................. AGAACAGGTGCTGGGTCAACTTGCCCTCCCATTTTTT 1189847 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 1189781 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1189757] 1189715 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 95.5 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTTATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCTGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTATTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAATGGTTGGGGGAAGGGGAATTTGGCGGTATTTGCTTGGGGAAATCTTCAGGATAAGGGGAGGTTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCCAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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 : GTTTTAGTTACTTATTGTGAAATGTAAAT # 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: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-1.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [14-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-58.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //