Array 1 14741-17628 **** Predicted by CRISPRDetect 2.4 *** >NZ_QYFJ01000001.1 Listeria monocytogenes strain N12-2169 NODE_1_length_1184646_cov_63.6557, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 14741 29 100.0 37 ............................. TGCAGCAATTAATGAAAAGCATTTACCAGGAACTTCC 14807 29 100.0 36 ............................. ACACTCAATACTACCAACGCTACAAATACCATCATT 14872 29 100.0 37 ............................. AAATCAAAATGTAGGAGTGGTCAAATTGTTTAAAACG 14938 29 100.0 36 ............................. AAAAAAGAAGTCGTATCTGAAAATAGTGAAGCACCT 15003 29 100.0 38 ............................. AAACCGTGTAGAAGTTTTAGCGGGATGTTGACAAAAGC 15070 29 100.0 35 ............................. CAGCCAGAAAAAGAGCCAGTGAAAGAATCATCTAA 15134 29 100.0 35 ............................. ACATATCCCCTATATAAGTACACGTATATTACCCG 15198 29 100.0 36 ............................. AACGGAGCTGTCCAATCATCGGGAGAAGTCCATTTT 15263 29 100.0 36 ............................. TAATAACTTACCTCAAAACTATCTGTATCACTATTT 15328 29 100.0 36 ............................. GCGGAATGCGAAGTTGTTATATATAACTTATCTCGC 15393 29 100.0 36 ............................. TCTTAAATGGTGTTTGCACATGTTAAGGGAGTCATG 15458 29 100.0 35 ............................. GTGCATATCTCCTATATTCATGGCTGTATATGTGT 15522 29 100.0 36 ............................. TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG 15587 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 15652 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 15717 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 15780 29 100.0 37 ............................. AAGTCTACTTGGATTTAGCTCTACACCTGCAACATGA 15846 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 15909 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 15974 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 16039 29 100.0 36 ............................. CTCATAAGGATTTCGAGGCGGGTTAAACGACATGTA 16104 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 16168 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 16233 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 16299 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 16364 29 100.0 37 ............................. TAATACAAAATATTCATAACTCCTACATCATTATATA 16430 29 100.0 36 ............................. TTGCAAACCTAACTTATCTTTGTTTTTTTGCTTTTC 16495 29 100.0 37 ............................. TTGGATTTTATTAAATACAGAGTCACGGATTGTATTT 16561 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTGGTT 16625 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 16688 29 100.0 36 ............................. CTGGTTTAAAAAAGAGTTTTTAGATCGCTTAGAAGA 16753 29 100.0 36 ............................. TCAGTTTGGTTCCAGCAGACATTACAATTCCTTGTA 16818 29 100.0 37 ............................. TTAGAAGCGGGACAGAAAAGAACTTTTCAAGATGTGT 16884 29 100.0 36 ............................. GGTGAATTCGTCACAAGTATTAAGTCAATTACAGCG 16949 29 100.0 37 ............................. GTTATTAAAGGCTATATAGACAAGGTCTTAAGCGAAC 17015 29 100.0 36 ............................. AGAAATATGGGAAGCTGGACCAGAAAACTTGGCAAG 17080 29 100.0 35 ............................. AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAA 17144 29 96.6 34 .......................C..... CAAGATATGCTAGAAATGGCGCAAATAGCGCGCG 17207 29 100.0 36 ............................. ACGTTTGCGGTAGTTTTACCGGGCACGGTCAAATAT 17272 29 100.0 37 ............................. AAGCTACCCCTGCAAGACATGAAATAATCGCAATGCC 17338 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 17403 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 17469 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 17533 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 17599 29 93.1 0 .......................A....C | C [17622] ========== ====== ====== ====== ============================= ====================================== ================== 45 29 99.8 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAACGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : CGTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCCAAATCCAAGCCTTTTCCCACAACACCTAAACCAACAAAACCGCAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAGCTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTGTTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATA # 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: F [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: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [56.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 437537-439289 **** Predicted by CRISPRDetect 2.4 *** >NZ_QYFJ01000003.1 Listeria monocytogenes strain N12-2169 NODE_3_length_444699_cov_73.1363, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 437537 36 100.0 30 .................................... TTTTGCCGGATGTGTAATACCTTTGAAACC 437603 36 100.0 30 .................................... TAGTAACACCAGAGGTTTTTAATGCGTACA 437669 36 100.0 30 .................................... TCATTCAAACGGAACATTTACGAATTAGTT 437735 36 100.0 30 .................................... TAAGCCTTCTTGGGCAGATAAAGATGTATC 437801 36 100.0 30 .................................... TATGTTATTTATAATACCTTCTTTGTTTCC 437867 36 100.0 30 .................................... AATATTTAGAGGAATTAGAGCGTACTAATG 437933 36 100.0 30 .................................... TACTGACCTTGACTATATCAAGTATAAACT 437999 36 100.0 30 .................................... AAAAATATTTATGCAAATCTGGCTGGAACA 438065 36 100.0 30 .................................... TTTTAAATATATTAGAGTCACTGTTAGCGG 438131 36 100.0 30 .................................... ATATAGATGTGAAAGAAGTCCCGTCCACCT 438197 36 100.0 30 .................................... TTCAACTACGGGTTTTGTCGGTAGCTTTGT 438263 36 100.0 30 .................................... ACTTGGCACGGAACTGTTTAGAGTCGGTTT 438329 36 100.0 30 .................................... TTCTTCTTCGTCTATTAACTCGCTCTCGTC 438395 36 100.0 30 .................................... CCAGAAAATGATGCTAATTAGTTTCCCTAC 438461 36 100.0 30 .................................... TACCATTACTTTTAGACCCTTTACGAATGC 438527 36 100.0 30 .................................... CTTTTTTCACTACTTTAATAGCAGAACTTT 438593 36 100.0 30 .................................... TAACTCTTCTTTCGTCATGTCGTGATGCGT 438659 36 100.0 30 .................................... TACAAATTACCGTGAAATTATGACTGCAGC 438725 36 100.0 30 .................................... ATCCCATTTTTCAACATAATAGGTAGCAAC 438791 36 100.0 30 .................................... TACGATGTTAAGCGGTGGAGTAGATCAGTA 438857 36 100.0 30 .................................... ACCATCCATGAAAGATTTAGAAATTTTACA 438923 36 100.0 30 .................................... CAAATATAAAATATTCAATAGTCCTATCTT 438989 36 100.0 30 .................................... TAAACATCGCTCATCGTGTCTTCTGTCGCT 439055 36 100.0 31 .................................... AAAGTACCGCAGTAAATAAGCCTGACTTCTC 439122 36 100.0 30 .................................... TAGCAAATTAACACTAGAATACGATTCAGG 439188 36 100.0 30 .................................... AGAACAACTACAAAACCAGCTTCTTGAGCG 439254 36 75.0 0 ............CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 27 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTTATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGATACAGTATTACTATCTTGCTTCGAAGTCGCTCTTAGAAAAAGGTGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATTCGAATTTTGAAATGAATGTTGACCAAGATAAAGATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTCGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATCTTATATGATTATATTCTAAATGCGAGTAAAAATAGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACACTATAT # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # 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:69.44%AT] # Reference repeat match prediction: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [56.7-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 2322-1712 **** Predicted by CRISPRDetect 2.4 *** >NZ_QYFJ01000004.1 Listeria monocytogenes strain N12-2169 NODE_4_length_284011_cov_71.6705, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 2321 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 2257 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 2192 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 2128 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 2065 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 2001 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 1936 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 1872 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 1806 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1782] 1740 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 10 29 95.2 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 [75.0-60.0]%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], //