Array 1 6536-5177 **** Predicted by CRISPRDetect 2.4 *** >NZ_APIK01000003.1 Listeria monocytogenes SHL011 contig3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 6535 36 100.0 30 .................................... GTAGATACTCTTGCAGATCGCGCATTCATG 6469 36 100.0 30 .................................... TATTGCTTAATTTTACTGCGGTATTAATAT 6403 36 100.0 30 .................................... TTTACGAAGTGCCGTTTATAGTCGAGATGG 6337 36 100.0 30 .................................... ATGCGTTTGGTACAGTACCTTGAACAACGT 6271 36 100.0 30 .................................... AGTCCAACAACCGCCTCCGTGTGTGTTTCT 6205 36 100.0 30 .................................... ATCAATCGACAATATAAATACGCATCATCT 6139 36 100.0 30 .................................... TTTAGGGAAGCGCCCTTCTTCCCGTTGAAA 6073 36 100.0 30 .................................... ATACGAATTCTTTATCAAGGGTCAGAACGG 6007 36 100.0 30 .................................... CCGATAGTTTTTTAAAAGTAACTTTACATT 5941 36 100.0 30 .................................... CTTATGCACGATTTAGATTACTACATAATT 5875 36 100.0 30 .................................... GTATTTACAAAGTATCTATCCGAGTCCATA 5809 36 100.0 30 .................................... TAAAAAAATACCAAGCGCAACACTCATTAA 5743 36 100.0 30 .................................... TTTAATTTCTTCCATCAGTCCAGCGGGAGC 5677 36 100.0 30 .................................... AGGTGGAGACTTCGGCTCTGGTTACTCATT 5611 36 100.0 31 .................................... CAAGACGGATGAGCTTGGCGACAATTTATCA 5544 36 100.0 30 .................................... ATATTCAAATGAATCAACTAATACTTTTTT 5478 36 100.0 30 .................................... TTTAGTTTATCAGTTTATCACAATGGAAGA 5412 36 100.0 30 .................................... CAGCTCTTTAGATCTAATGCTGTATAGCTT 5346 36 100.0 30 .................................... ACAATAAGATTTTTGAAGGGGATATAGGCT 5280 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 5214 36 77.8 0 ............CA.....C.....A.A....T.GA | A,T [5181,5186] ========== ====== ====== ====== ==================================== =============================== ================== 21 36 98.9 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAATTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTATATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : GACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCTCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGGGAATCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAGTTTAAAAATCTTGTATGATTATATTCTAAATACGAGTAAAGATAATGACACGCTTGAACTATATACTGCTTGGAACAGCGAGGAAGATTTCCTGCTATTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGATAGAGAACTATTAATAATTAAAAAAGAAAATCGATATAACTTTTAGCACCATTC # 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: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 34145-34891 **** Predicted by CRISPRDetect 2.4 *** >NZ_APIK01000001.1 Listeria monocytogenes SHL011 contig1, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 34145 29 100.0 37 ............................. AGCGTTTTTCTTTTTCGCTTCATTTGATAAATCTTCC 34211 29 100.0 36 ............................. AGTATTTACTTAGACAAACGCGCTCAAATTGAGCAT 34276 29 96.6 38 ................T............ ACAGTCAGTTTGTGCTCATTCACTTGAACTGCATCTTT 34343 29 96.6 37 ................T............ AGCGCAACAGGTGCCATATACAAACTGCCTTTTTTTC 34409 29 100.0 37 ............................. GAACCAGTAAGCATCATATTTTTATGAATTGCTTTTA 34475 29 100.0 36 ............................. GAATTATTAGAAAAAATGAAGCAACAAGGTATTGAA 34540 29 100.0 36 ............................. TTTTACATGGGAGTCAAAAGAGCAACTTAATATACT 34605 29 96.6 34 ................T............ GTTGGTAGGTTTAACCAAAGATGATCACCATGTC 34668 29 100.0 34 ............................. ATGTCCCACTGCTCAATTTTTAACGGGACTCCAG 34731 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 34797 29 75.9 36 ......T.C.A.C...CA...T....... GAAGAAACAGCAAAATAACCAAAAGTAATGACTTTC G [34820] 34863 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], //