Array 1 14741-17562 **** Predicted by CRISPRDetect 2.4 *** >NZ_QYFT01000001.1 Listeria monocytogenes strain N12-1478 NODE_1_length_1184738_cov_54.5577, 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 36 ............................. AAAAAAGAAGTCGTATCTGAAAATAGTGAAGCACCT 14937 29 100.0 38 ............................. AAACCGTGTAGAAGTTTTAGCGGGATGTTGACAAAAGC 15004 29 100.0 35 ............................. CAGCCAGAAAAAGAGCCAGTGAAAGAATCATCTAA 15068 29 100.0 35 ............................. ACATATCCCCTATATAAGTACACGTATATTACCCG 15132 29 100.0 36 ............................. AACGGAGCTGTCCAATCATCGGGAGAAGTCCATTTT 15197 29 100.0 36 ............................. TAATAACTTACCTCAAAACTATCTGTATCACTATTT 15262 29 100.0 36 ............................. GCGGAATGCGAAGTTGTTATATATAACTTATCTCGC 15327 29 100.0 36 ............................. TCTTAAATGGTGTTTGCACATGTTAAGGGAGTCATG 15392 29 100.0 35 ............................. GTGCATATCTCCTATATTCATGGCTGTATATGTGT 15456 29 100.0 36 ............................. TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG 15521 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 15586 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 15651 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 15714 29 100.0 37 ............................. AAGTCTACTTGGATTTAGCTCTACACCTGCAACATGA 15780 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 15843 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 15908 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 15973 29 100.0 36 ............................. CTCATAAGGATTTCGAGGCGGGTTAAACGACATGTA 16038 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 16102 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 16167 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 16233 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 16298 29 100.0 37 ............................. TAATACAAAATATTCATAACTCCTACATCATTATATA 16364 29 100.0 36 ............................. TTGCAAACCTAACTTATCTTTGTTTTTTTGCTTTTC 16429 29 100.0 37 ............................. TTGGATTTTATTAAATACAGAGTCACGGATTGTATTT 16495 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTGGTT 16559 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 16622 29 100.0 36 ............................. CTGGTTTAAAAAAGAGTTTTTAGATCGCTTAGAAGA 16687 29 100.0 36 ............................. TCAGTTTGGTTCCAGCAGACATTACAATTCCTTGTA 16752 29 100.0 37 ............................. TTAGAAGCGGGACAGAAAAGAACTTTTCAAGATGTGT 16818 29 100.0 36 ............................. GGTGAATTCGTCACAAGTATTAAGTCAATTACAGCG 16883 29 100.0 37 ............................. GTTATTAAAGGCTATATAGACAAGGTCTTAAGCGAAC 16949 29 100.0 36 ............................. AGAAATATGGGAAGCTGGACCAGAAAACTTGGCAAG 17014 29 100.0 35 ............................. AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAA 17078 29 96.6 34 .......................C..... CAAGATATGCTAGAAATGGCGCAAATAGCGCGCG 17141 29 100.0 36 ............................. ACGTTTGCGGTAGTTTTACCGGGCACGGTCAAATAT 17206 29 100.0 37 ............................. AAGCTACCCCTGCAAGACATGAAATAATCGCAATGCC 17272 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 17337 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 17403 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 17467 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 17533 29 93.1 0 .......................A....C | C [17556] ========== ====== ====== ====== ============================= ====================================== ================== 44 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 437522-439274 **** Predicted by CRISPRDetect 2.4 *** >NZ_QYFT01000003.1 Listeria monocytogenes strain N12-1478 NODE_3_length_444684_cov_60.3322, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 437522 36 100.0 30 .................................... TTTTGCCGGATGTGTAATACCTTTGAAACC 437588 36 100.0 30 .................................... TAGTAACACCAGAGGTTTTTAATGCGTACA 437654 36 100.0 30 .................................... TCATTCAAACGGAACATTTACGAATTAGTT 437720 36 100.0 30 .................................... TAAGCCTTCTTGGGCAGATAAAGATGTATC 437786 36 100.0 30 .................................... TATGTTATTTATAATACCTTCTTTGTTTCC 437852 36 100.0 30 .................................... AATATTTAGAGGAATTAGAGCGTACTAATG 437918 36 100.0 30 .................................... TACTGACCTTGACTATATCAAGTATAAACT 437984 36 100.0 30 .................................... AAAAATATTTATGCAAATCTGGCTGGAACA 438050 36 100.0 30 .................................... TTTTAAATATATTAGAGTCACTGTTAGCGG 438116 36 100.0 30 .................................... ATATAGATGTGAAAGAAGTCCCGTCCACCT 438182 36 100.0 30 .................................... TTCAACTACGGGTTTTGTCGGTAGCTTTGT 438248 36 100.0 30 .................................... ACTTGGCACGGAACTGTTTAGAGTCGGTTT 438314 36 100.0 30 .................................... TTCTTCTTCGTCTATTAACTCGCTCTCGTC 438380 36 100.0 30 .................................... CCAGAAAATGATGCTAATTAGTTTCCCTAC 438446 36 100.0 30 .................................... TACCATTACTTTTAGACCCTTTACGAATGC 438512 36 100.0 30 .................................... CTTTTTTCACTACTTTAATAGCAGAACTTT 438578 36 100.0 30 .................................... TAACTCTTCTTTCGTCATGTCGTGATGCGT 438644 36 100.0 30 .................................... TACAAATTACCGTGAAATTATGACTGCAGC 438710 36 100.0 30 .................................... ATCCCATTTTTCAACATAATAGGTAGCAAC 438776 36 100.0 30 .................................... TACGATGTTAAGCGGTGGAGTAGATCAGTA 438842 36 100.0 30 .................................... ACCATCCATGAAAGATTTAGAAATTTTACA 438908 36 100.0 30 .................................... CAAATATAAAATATTCAATAGTCCTATCTT 438974 36 100.0 30 .................................... TAAACATCGCTCATCGTGTCTTCTGTCGCT 439040 36 100.0 31 .................................... AAAGTACCGCAGTAAATAAGCCTGACTTCTC 439107 36 100.0 30 .................................... TAGCAAATTAACACTAGAATACGATTCAGG 439173 36 100.0 30 .................................... AGAACAACTACAAAACCAGCTTCTTGAGCG 439239 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_QYFT01000004.1 Listeria monocytogenes strain N12-1478 NODE_4_length_284011_cov_60.0843, 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], //