Array 1 6319-7874 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXSY01000008.1 Listeria monocytogenes strain CFSAN046023 CFSAN046023_contig_0000008, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 6319 36 100.0 30 .................................... TTAAAACAATGGTGCGCTTTTCAACTGGTT 6385 36 100.0 31 .................................... ACTGTTAAACATTACAAATAGTTATTCATAT 6452 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 6518 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 6584 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 6650 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 6716 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 6783 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 6849 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 6915 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 6981 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 7047 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 7113 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 7179 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 7245 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 7311 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 7377 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 7443 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 7509 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 7575 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 7641 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 7707 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 7773 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 7839 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 24 36 98.8 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 281262-282002 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXSY01000007.1 Listeria monocytogenes strain CFSAN046023 CFSAN046023_contig_0000007, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 281262 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 281327 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 281392 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 281456 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 281522 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 281586 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 281649 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 281713 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 281778 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 281842 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 281908 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [281931] 281974 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 95.7 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT # 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], //