Array 1 45-2606 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYNU01000004.1 Listeria monocytogenes strain CDPHFDLB-F1601030-027-E110B2 F1601030-027-E110B2_Contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 45 29 100.0 38 ............................. TCTGGAGAATCTGATGTTAAAATCTCTGATCATGTTGT 112 29 100.0 38 ............................. AGAAATTAAAGAAGGTAGGGCATTCGTTGCACCGGAAA 179 29 100.0 35 ............................. AAAATTAGCGTTCCAAAAATAAGACCTGTCGCAAC 243 29 100.0 34 ............................. ATACTAAAACTTCGCTCATTTTCCGCAACTCCTT 306 29 100.0 35 ............................. TTAAGAAATATGATTGATTCTCTGGATATCACTTT 370 29 100.0 37 ............................. CCTCCACAATCACTCGGCTTTCTTCGTCTTTATCGAC 436 29 100.0 36 ............................. ATTTAACAAATCAGCTAAATCAGCGCGACTCTGATA 501 29 100.0 37 ............................. GTCGCTAGAGCTAAAAAATGGATAGAGGAACAACAAG 567 29 100.0 36 ............................. TCAACTAATATTAATATCTCTTGTGGATTGGCCATT 632 29 100.0 35 ............................. ACTTGAAGGACGTGCTTCAAAATATTTAGTTGCAT 696 29 100.0 37 ............................. TCTGTTGTAACTGTTGTGCCTTCCACAGCGTGCACTT 762 29 100.0 35 ............................. ACATTTTGCACGCACCAAGCTTGACGGTCTGAAAC 826 29 100.0 35 ............................. TTTATCTTTATCTATTTCTCCAGTAATAGAGCACG 890 29 100.0 34 ............................. ACATTTTTATCTGAGAAAGGGTTTAGGGAAAATT 953 29 100.0 35 ............................. AAAAAAACAACTGCGCAAGAAGGGTATGAGCAATT 1017 29 100.0 36 ............................. GTTGGACACCGTCAGCAGAGCTTATAAATCCACTGT 1082 29 100.0 36 ............................. TTTTTCCATTCTTCTCGCCGATGTATTCCTTTTCTC 1147 29 100.0 36 ............................. AACAAAAATACGTTATTTGTTCGATGTAATGTAAAA 1212 29 100.0 38 ............................. TCAACTAACGAGGCAACAGGTGTTTTATAGCTGTAAAG 1279 29 100.0 36 ............................. TGGTAAATTTTATAGGAATGTCAACACCTTGAATTT 1344 29 100.0 36 ............................. CCAGAAATGGAGTGCGCGGTTGATTTTGGATTTAGC 1409 29 100.0 37 ............................. AAGAACATTAGATGAACTTAAAGCGTCTGTTGAACAA 1475 29 100.0 35 ............................. AAACCAGAGCCAGAAAAAGAAGTTGTGAAAGAAGA 1539 29 100.0 37 ............................. ACGTCACTTGTTTTTGCCTTTGTTTTCGCCCTTTCCT 1605 29 100.0 36 ............................. GTTGAAAAGCGCACCATTGTTTTAATTTTTTTAATT 1670 29 100.0 37 ............................. TTTTGTCGCATAAATTCTTTGATGTGGCGGACTGACG 1736 29 100.0 35 ............................. AACAGTATCATCACGTTGTTATTGCTGTCACCTGT 1800 29 100.0 36 ............................. TAACCAAGCATTGCCAAAAACTCGTCTGTTGATAAT 1865 29 100.0 36 ............................. TTCTATTGCAGAACAGAATGAATTGTATGCACAAGG 1930 29 100.0 37 ............................. TCGTTAATCATAATTGATGAAAGTCATCATGTGTTAG 1996 29 100.0 36 ............................. ACGGGTACCAGCTTTGATTTGCCGTTTTCAATTATT 2061 29 100.0 35 ............................. TTTATCACTCCTATGCTTTTCTTATTTCTGTAAAT 2125 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 2189 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 2254 29 100.0 36 ............................. TTAATAAATCCGATGGTGATGCCTATGTTATACGTC 2319 29 100.0 35 ............................. TAAAACATCGCTTCGTTATACAATGTCTTTTTATA 2383 29 100.0 35 ............................. TGTTATCTCCTGTGATGTAAAATAACCCTTCTATC 2447 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 2513 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 2577 29 93.1 0 .......................A....C | C [2600] ========== ====== ====== ====== ============================= ====================================== ================== 40 29 99.8 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : ATGTAAATTTTAATAACTATGACAGTGAATTTAAAACGAAAGCGG # Right flank : CGTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCTAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCACAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAAT # 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: F [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: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [55.0-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 1054-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYNU01000003.1 Listeria monocytogenes strain CDPHFDLB-F1601030-027-E110B2 F1601030-027-E110B2_Contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1053 29 100.0 34 ............................. AGTTTTAGAAGTATGTTAGACGTTGACGAAAATC 990 29 100.0 35 ............................. TCAAGCTGGTATGCACTTTTTGAGGTAAGCTATTG 926 29 100.0 37 ............................. GAAAAAGAACCAGTTAAAGAACCCGTGAAAGAAGAAC 860 29 100.0 36 ............................. AAAGAAAACTTGCAGCAGAATGACGCAAATCATGAA 795 29 100.0 38 ............................. AGAAATTCTCATGGCGCTAATAACCCCATGCCAGACGA 728 29 100.0 34 ............................. CATTTCAATCACTTCTTTTGATGTAACATTAAGC 665 29 100.0 36 ............................. TGTAACTGCAAACGTCTTTCCGCAAATTCGTGTAGT 600 29 100.0 36 ............................. TTATCCATTCCGTCATATCCCCACGCATCTGTTCCA 535 29 100.0 37 ............................. AGAGTTTCCAGCTGTAAGGCCAGATATTGATAATTTC 469 29 100.0 36 ............................. TATGAAATTATCTGCGAAGAGGGAAAACTAGACGAT 404 29 100.0 36 ............................. AGCGGTTTTTCTTCTATAGAAGTAACTTGCTTTTGT 339 29 100.0 37 ............................. GTTTATAGTATGTAAAACAAACACAGGAAAATATATC 273 29 100.0 35 ............................. TAAATTGTTAAGCTTGTCAACAACCTGCAAGAACT 209 29 100.0 37 ............................. GTTTCCAGTTTCTTCTATATAAACAACAAAAATAAAA 143 29 100.0 39 ............................. ACGAAAATAGCTAAATTGGATTTACTTGAGTCTTTTTTC 75 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 16 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : TCAAAGCAAGTACAGAAGCGTATTATGCTCTATTAGAGTGTTTTAAC # 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [50.0-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 18093-17347 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYNU01000003.1 Listeria monocytogenes strain CDPHFDLB-F1601030-027-E110B2 F1601030-027-E110B2_Contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================== ================== 18092 29 100.0 42 ............................. ACACAAATATGAAAAAACTTCTATTAAAAGCAATTCCATCCT 18021 29 100.0 36 ............................. AAACCTATCACATTTAAGTATTTAGAGATTCCTAAA 17956 29 100.0 36 ............................. GTAGTTTGCGAACGTTTAAAAACATAATTTGAAAAC 17891 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 17827 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 17763 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 17700 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 17636 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 17571 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 17507 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 17441 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [17417] 17375 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ========================================== ================== 12 29 96.0 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTAATACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 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 [75.0-60.0]%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], //