Array 1 33959-34705 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYMY01000001.1 Listeria monocytogenes strain CDPHFDLB-F1605034-061-2 F1605034-061-2_Contig_1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 33959 29 100.0 37 ............................. AGCGTTTTTCTTTTTCGCTTCATTTGATAAATCTTCC 34025 29 100.0 36 ............................. AGTATTTACTTAGACAAACGCGCTCAAATTGAGCAT 34090 29 96.6 38 ................T............ ACAGTCAGTTTGTGCTCATTCACTTGAACTGCATCTTT 34157 29 96.6 37 ................T............ AGCGCAACAGGTGCCATATACAAACTGCCTTTTTTTC 34223 29 100.0 37 ............................. GAACCAGTAAGCATCATATTTTTATGAATTGCTTTTA 34289 29 100.0 36 ............................. GAATTATTAGAAAAAATGAAGCAACAAGGTATTGAA 34354 29 100.0 36 ............................. TTTTACATGGGAGTCAAAAGAGCAACTTAATATACT 34419 29 96.6 34 ................T............ GTTGGTAGGTTTAACCAAAGATGATCACCATGTC 34482 29 100.0 34 ............................. ATGTCCCACTGCTCAATTTTTAACGGGACTCCAG 34545 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 34611 29 75.9 36 ......T.C.A.C...CA...T....... GAAGAAACAGCAAAATAACCAAAAGTAATGACTTTC G [34634] 34677 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 95.1 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGGAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATATGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.75, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.88, # 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 : GTTTTAGTTACTTATTTTGAAATGTAAAT # 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: F [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.20,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-16] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [60.0-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 6212-7768 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYMY01000015.1 Listeria monocytogenes strain CDPHFDLB-F1605034-061-2 F1605034-061-2_Contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 6212 36 100.0 30 .................................... GCATCCACATATTTAAAATATGAAACAGGA 6278 36 100.0 30 .................................... TGATTTTCGTGTCGTTTATGTCAGTGATCG 6344 36 100.0 30 .................................... TATTGCTTAATTTTACTGCGGTATTAATAT 6410 36 100.0 30 .................................... TATTTAATGCTTTCTCTCTGTTTATGTCTA 6476 36 100.0 30 .................................... TTTACGAAGTGCCGTTTATAGTCGAGATGG 6542 36 100.0 30 .................................... ATGCGTTTGGTACAGTACCTTGAACAACGT 6608 36 100.0 30 .................................... AGTCCAACAACCGCCTCCGTGTGTGTTTCT 6674 36 100.0 30 .................................... CTTTCATCAAGTGTATTTTTTGCGACAAGA 6740 36 100.0 30 .................................... ATCAATCGACAATATAAATACGCATCATCT 6806 36 100.0 30 .................................... TTTAGGGAAGCGCCCTTCTTCCCGTTGAAA 6872 36 100.0 30 .................................... ATACGAATTCTTTATCAAGGGTCAGAACGG 6938 36 100.0 30 .................................... CCGATAGTTTTTTAAAAGTAACTTTACATT 7004 36 100.0 30 .................................... CTTATGCACGATTTAGATTACTACATAATT 7070 36 100.0 30 .................................... GTATTTACAAAGTATCTATCCGAGTCCATA 7136 36 100.0 30 .................................... TAAAAAAATACCAAGCGCAACACTCATTAA 7202 36 100.0 30 .................................... TTTAATTTCTTCCATCAGTCCAGCGGGAGC 7268 36 100.0 30 .................................... AGGTGGAGACTTCGGCTCTGGTTACTCATT 7334 36 100.0 31 .................................... CAAGACGGATGAGCTTGGCGACAATTTATCA 7401 36 100.0 30 .................................... ATATTCAAATGAATCAACTAATACTTTTTT 7467 36 100.0 30 .................................... TTTAGTTTATCAGTTTATCACAATGGAAGA 7533 36 100.0 30 .................................... CAGCTCTTTAGATCTAATGCTGTATAGCTT 7599 36 100.0 30 .................................... ACAATAAGATTTTTGAAGGGGATATAGGCT 7665 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 7731 36 77.8 0 ............CA.....C.....T.A....T.GA | A,A [7756,7762] ========== ====== ====== ====== ==================================== =============================== ================== 24 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAATTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTATATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCTCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGGGAATCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAGTTTAAAAATCTTGTATGATTATATTCTAAATACGAGTAAAGATAATGACACGCTTGAACTATATACTGCTTGGAACAGCGAGGAAGATTTCCTGCTATTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGATAGAGAACTATTAATAATTAAAAAAGAAAATCGATATAACTTTTAGCACCATT # 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 [0-10] 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], //