Array 1 429769-431852 **** Predicted by CRISPRDetect 2.4 *** >NZ_APIE01000003.1 Listeria monocytogenes SHL005 contig3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 429769 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 429835 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 429901 36 100.0 30 .................................... GATGCTTCTTTTTCGAAATCCACTGGTGCA 429967 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 430033 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 430099 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 430166 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 430232 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 430298 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 430364 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 430430 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 430496 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 430562 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 430628 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 430694 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 430760 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 430826 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 430892 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 430958 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 431024 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 431090 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 431156 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 431223 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 431289 36 100.0 30 .................................... ACGTGATGGTCCTTGGAAAAGGAGATTACT 431355 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 431421 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 431487 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 431553 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 431619 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 431685 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 431751 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 431817 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 32 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACA # 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], // Array 1 281280-282020 **** Predicted by CRISPRDetect 2.4 *** >NZ_APIE01000002.1 Listeria monocytogenes SHL005 contig2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 281280 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 281345 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 281410 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 281474 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 281540 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 281604 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 281667 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 281731 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 281796 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 281860 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 281926 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [281949] 281992 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 95.7 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAAAAAAAAAAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAG # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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: 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 [58.3-75.0]%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], //