Array 1 6301-5338 **** Predicted by CRISPRDetect 2.4 *** >NZ_MJOI01000005.1 Listeria monocytogenes strain BCW_3934 PROKKA_contig000005, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 6300 36 100.0 30 .................................... GATTTACTAGAACACAAAATTACAAAGTGA 6234 36 100.0 30 .................................... TAGTTGCCATCGTAGTAATAAAACGCTTAG 6168 36 100.0 30 .................................... TTGGACTACGGACTTTTCTAGTTCGGACTG 6102 36 100.0 30 .................................... TTTTAATAGAAATGCGTGGCACTGTGGCGA 6036 36 100.0 30 .................................... CCCTGCAAATCAGAATTAAACTGAATAGCG 5970 36 100.0 30 .................................... ACTGGACGGGGCATTAATTGCACTGTAACG 5904 36 100.0 30 .................................... TAAGACTGGTATACCAAAGTCAACGCTTTC 5838 36 100.0 30 .................................... TCTTAACACGGATTATTTATTAACGGTACT 5772 36 100.0 30 .................................... AACCTCTGATGTAGCTTGTTTTTAACTGTT 5706 36 100.0 30 .................................... TAAATTCATACCCTTAACCAGTTTGATCCT 5640 36 100.0 30 .................................... TTGTTGCTTTGATCCAATCGTCACCATGAA 5574 36 100.0 30 .................................... GCTATTGTTGTCTGCGAGCGCCGTTGTGGT 5508 36 100.0 30 .................................... TGCGATGAGAGAAGCTTTTCCGGATAACTT 5442 36 100.0 30 .................................... CGAAAGTGATTTTGGTATCTCTGACAGTGG 5376 36 86.1 0 .............A.....C.....A.A.......G | C,A,T [5341,5344,5349] ========== ====== ====== ====== ==================================== ============================== ================== 15 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGTGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTTATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : ATAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAGGCTATCTATATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTTCCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATTTCAACTTGCTGTAAGTAAAGGGAACCTGCCGCTGAAAGGTAATGGGCAAAAAAAATTGTTACGAGACTAAAAATTTAAAAATCTTGTATGATTATATTCTAAATACAAGTAAAGATAATGACACGATTAAACTATATACTGCTTGAAACAGCGAGGAAGATTTCCTGTTATTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGACAGAGAACTATTAATAATTAAAAATGAAAACCGATATAACTTT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [66.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.87 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 299076-300075 **** Predicted by CRISPRDetect 2.4 *** >NZ_MJOI01000007.1 Listeria monocytogenes strain BCW_3934 PROKKA_contig000007, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 299076 29 93.1 35 ..........T...T.............. GACATTAATTTTATTGCTTTATCACTGAACTCAGC 299140 29 93.1 37 ..........T...T.............. GTAGTTTGTGACCGTTTAAAAACATAATTTGAAAAAC 299206 29 96.6 36 ..............T.............. TTACCCGTTTCATCATTTCCAAGCGTTGCATCAATG 299271 29 100.0 37 ............................. TCTGTATAATAAGAAGTACGTTTTGCGACTGGTGCCA 299337 29 93.1 36 ..............T...A.......... AAAACAACTAAAAGACCGCCTACTATTTATACTCCT 299402 29 93.1 36 ..............T...A.......... TTTAACGTTGGCCCAACATTTTTATCTGAGAAGGGG 299467 29 93.1 35 ..............T...A.......... TCTTTTAACCTAGCTCTTATCAATGTTTGAGTAAC 299531 29 93.1 36 A..............C............. GATTTAAAGTTAGATATAAATAATGTGATTTTAGTT 299596 29 93.1 35 ..........A...T.............. ATTTACGCAAGAACTGGAACTATTAAAGCCGCTAT 299660 29 93.1 36 .........G....T.............. AAAGGTAATACGAATTTATCTGTTAGTTGAAAAATC 299725 29 100.0 34 ............................. GTGTACTCTAATGCCAAATTTAATTCCTCCTATT 299788 29 100.0 36 ............................. TCGACATAACACATATATTTAAAATCATTAAAACTA 299853 29 93.1 36 ..........A...T.............. AATTGTTTGGCTAAAGCGTCAGAATAAGATGTTGTG 299918 29 96.6 36 ..............T.............. AAGGCAGTTAAGTAAGCAGCGACAGGGAACGGAAAT 299983 29 100.0 35 ............................. GGAATCACGGACAGTCAGGCGAAGATAACTAAACT 300047 29 79.3 0 ......A.......TCA.A....A..... | ========== ====== ====== ====== ============================= ===================================== ================== 16 29 94.4 36 GTTTTAGTTACTTAATGTGAAATGTAAAT # Left flank : GGCGTCCGTGCCACTACTTCAGCTGACATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACTATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGTAAAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTGTTATCTGTCGACCTTGAGTAGTGTGAAAAATACCGGAGACCGACAGAAAGTTGTAAGTGGCTGGGGGAAGGGAGGTTTGGCGGTATTTGCTTGGGAAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGCGG # Right flank : TTCCTCCATACACAACTCCACCACCATCCATCAAAACCAAAAAAACGTGACTGCCAAACTCGCAGTCACGCTTTTTCTCAATCATTAAACTCTTTCAAAACATCCTCTTTAATTTCAGTATAATTGGTTACTTCCTCTTGCTCCTCGGAAATGAAATTATATGCTTCCACTTCTCCCAAATTCTCGAAATCGGTAAGAGTAGCGTCTGTTTCTTTCAAGTCTTCATTAAATTTGCCGTAGCCCATGCTGATGATTGAACTTAGTTTTTCGCTGTCATGTCCGCCGCGTAAAAATAATGTGTATTCTTGCTCTTGCTCAAGCGCGATATAGTTTTCAATGGATTCATACGCACCTTCATTTAAATACCAAGGTTCTGAAACGTCAATTTTGTCGCCTTTTTTGAAAGTGCCTTTGTAAGTTTCTAAAACTTCGACTTCACTTATAGTGCTGCTATATTCCATTTTTTCTTTATCGTAATCGCCAATTTTCTTATTTTTCAC # Questionable array : NO Score: 5.35 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.37, # 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 : GTTTTAGTTACTTAATGTGAAATGTAAAT # 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 97% 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 [1-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [56.7-55.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //