Array 1 7160-5407 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUEB01000004.1 Listeria monocytogenes strain CFSAN026610 CFSAN026610_contig0003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 7159 36 100.0 30 .................................... CAGCTTCCGGTAGTACTTCACTTGCATATG 7093 36 100.0 30 .................................... CAGATGAAAACATCCCACAAGTTCACGCAA 7027 36 100.0 30 .................................... ACACACTCACACAGGACTATGCGTTGAGGC 6961 36 100.0 30 .................................... TTGCTGTTTCGTGTAGGCGACGATTATATT 6895 36 100.0 30 .................................... TGTTTTTTATGTTTAGCATCCATAGTCGTA 6829 36 100.0 30 .................................... AGCACCACGCAGGGCTATTCACAGACGCTC 6763 36 100.0 30 .................................... TAAGCGAAAAAGAATTGTCCCCGCTCCCGC 6697 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 6630 36 100.0 30 .................................... TTTCGGTACGGAATTCCCGATTCGTTTTGA 6564 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 6498 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 6432 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 6366 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 6300 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 6234 36 100.0 30 .................................... ACCAAGTCTAAGTGTAGACTGGCGTGCGCA 6168 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 6102 36 100.0 30 .................................... ATATAAAACATTACAAGAAGCGGAAAACGA 6036 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 5970 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 5904 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 5838 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 5772 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 5706 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 5640 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 5574 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 5508 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 5442 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 27 36 99.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : GAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACAC # 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 [68.3-56.7]%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 267867-268476 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUEB01000005.1 Listeria monocytogenes strain CFSAN026610 CFSAN026610_contig0004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 267867 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 267931 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 267996 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 268060 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 268123 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 268187 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 268252 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 268316 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAGAGTGTAGTATT 268382 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [268405] 268448 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 10 29 94.8 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT # Questionable array : NO Score: 6.00 # Score Detail : 1:0, 2:3, 3:0, 4:0.74, 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 [60.0-75.0]%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], //