Array 1 290831-288601 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYPS01000003.1 Listeria monocytogenes strain CDPHFDLB-F14M01574.16-3 F14M010574-16-3_Contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 290830 29 100.0 35 ............................. TCATTTAGAAATGAGTGGGAACGGTTTAGTGAAAA 290766 29 100.0 36 ............................. TTCTTACTCTGTTTCAACATCTAAGGATAAAATCTC 290701 29 100.0 37 ............................. TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG 290635 29 100.0 36 ............................. TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC 290570 29 100.0 36 ............................. CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG 290505 29 100.0 36 ............................. AAGTTCAAAACCTCCCACACCCGCTATGAATAAATT 290440 29 100.0 37 ............................. GTCTTTGCATTTGATGATGATTACTTTTTTAAAGTCT 290374 29 100.0 35 ............................. ACGAGTATCAGCGCTAAAAGAGATTGTTAAGCGCC 290310 29 100.0 36 ............................. TTAAGAACATAAGCTTCACTCTTTAAAGGGAGTAAA 290245 29 100.0 37 ............................. AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC 290179 29 100.0 37 ............................. TGCCGCAAAAACGTTGGGGAACGTTGTTCAAGGTATT 290113 29 100.0 36 ............................. ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG 290048 29 100.0 37 ............................. TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC 289982 29 100.0 35 ............................. GTAACAAGTAGTGTTATACCTGCAACAATACCAGC 289918 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 289853 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 289788 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 289725 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 289662 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 289596 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 289533 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 289468 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 289404 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 289338 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 289273 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTAGTT 289209 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 289146 29 100.0 35 ............................. AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAA 289082 29 100.0 37 ............................. CAGTGATTATGCTAAGACCTACACAATCGTTATCACT 289016 29 100.0 33 ............................. TAAGGTCATATAAGAAAAAATGTATTTTTTCCC 288954 29 96.6 34 .......................C..... CAAGATATGCTAGAAATGGCGCAAATAGCGCGCG 288891 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 288826 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 288760 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 288696 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 288630 29 93.1 0 .......................C....C | A [288605] ========== ====== ====== ====== ============================= ===================================== ================== 35 29 99.7 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCCAAATCCAAGCCTTTTCCCACAACACCTAAACCAACAAAACCGCAACCAATGCCAAAACCGCCGGCAAGCCCTGTTTCACCAAAATCCCCTTAGAAGAAGTCGCTCCGCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCCGCAAATCCTGCTCCTGCGAAAAACAATCCCCACGCAAGCCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGGAGTTCTTTCTCGACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATAG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 : GTTTTAACTACTTATTATGAAATGTAAAT # 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:82.76%AT] # Reference repeat match prediction: R [matched GTTTTAACTACTTATTATGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [65.0-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 307718-307101 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYPS01000003.1 Listeria monocytogenes strain CDPHFDLB-F14M01574.16-3 F14M010574-16-3_Contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 307717 29 100.0 35 ............................. TTGGATGCAAAAACTTTAATAGCCTCTGCATCAAG 307653 29 100.0 34 ............................. AAATCAACGGGTAAATATTTACTCACAGAGCTTC 307590 29 100.0 38 ............................. CTGGTCCTGTGCTGATGATTGGCGGAAAACTAGTAACA 307523 29 100.0 35 ............................. GTTGAACTAGAAAAACTGCTTGCTTGGGTAGATGA 307459 29 100.0 37 ............................. CATTTCAATAGCTTCCTTTGATGTAACATTAAGCTCA 307393 29 100.0 37 ............................. AGCGGTGTAGACAAAATAACTACAATTAAATTTTCCG 307327 29 100.0 37 ............................. AGAACAGGTGCTGGGTCAACTTGCCCTCCCATTTTTT 307261 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 307195 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [307171] 307129 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 95.5 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTTATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCTGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTATTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAATGGTTGGGGGAAGGGGAATTTGGCGGTATTTGCTTGGGGAAATCTTCAGGATAAGGGGAGGTTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCCAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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: R [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-1.20] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [14-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-58.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //