Array 1 289364-286670 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYSH01000003.1 Listeria monocytogenes strain CDPHFDLB-F12M00816 CDPHFDLB_F12M00816_Contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 289363 29 100.0 38 ............................. TATCAAAAAGCTTGTGCTATTATGGAAAGTCGTTGGGA 289296 29 100.0 36 ............................. TTTAATAACTATGACAGTGAATTTAAAACGAAAGCG 289231 29 100.0 38 ............................. TCTGGAGAATCTGATGTTAAAATCTCTGATCATGTTGT 289164 29 100.0 38 ............................. AGAAATTAAAGAAGGTAGGGCATTCGTTGCACCGGAAA 289097 29 100.0 35 ............................. AAAATTAGCGTTCCAAAAATAAGACCTGTCGCAAC 289033 29 100.0 34 ............................. ATACTAAAACTTCGCTCATTTTCCGCAACTCCTT 288970 29 100.0 35 ............................. TTAAGAAATATGATTGATTCTCTGGATATCACTTT 288906 29 100.0 37 ............................. CCTCCACAATCACTCGGCTTTCTTCGTCTTTATCGAC 288840 29 100.0 36 ............................. ATTTAACAAATCAGCTAAATCAGCGCGACTCTGATA 288775 29 100.0 37 ............................. GTCGCTAGAGCTAAAAAATGGATAGAGGAACAACAAG 288709 29 100.0 36 ............................. TCAACTAATATTAATATCTCTTGTGGATTGGCCATT 288644 29 100.0 35 ............................. ACTTGAAGGACGTGCTTCAAAATATTTAGTTGCAT 288580 29 100.0 37 ............................. TCTGTTGTAACTGTTGTGCCTTCCACAGCGTGCACTT 288514 29 100.0 35 ............................. ACATTTTGCACGCACCAAGCTTGACGGTCTGAAAC 288450 29 100.0 35 ............................. TTTATCTTTATCTATTTCTCCAGTAATAGAGCACG 288386 29 100.0 34 ............................. ACATTTTTATCTGAGAAAGGGTTTAGGGAAAATT 288323 29 100.0 35 ............................. AAAAAAACAACTGCGCAAGAAGGGTATGAGCAATT 288259 29 100.0 36 ............................. GTTGGACACCGTCAGCAGAGCTTATAAATCCACTGT 288194 29 100.0 36 ............................. TTTTTCCATTCTTCTCGCCGATGTATTCCTTTTCTC 288129 29 100.0 36 ............................. AACAAAAATACGTTATTTGTTCGATGTAATGTAAAA 288064 29 100.0 38 ............................. TCAACTAACGAGGCAACAGGTGTTTTATAGCTGTAAAG 287997 29 100.0 36 ............................. TGGTAAATTTTATAGGAATGTCAACACCTTGAATTT 287932 29 100.0 36 ............................. CCAGAAATGGAGTGCGCGGTTGATTTTGGATTTAGC 287867 29 100.0 37 ............................. AAGAACATTAGATGAACTTAAAGCGTCTGTTGAACAA 287801 29 100.0 35 ............................. AAACCAGAGCCAGAAAAAGAAGTTGTGAAAGAAGA 287737 29 100.0 37 ............................. ACGTCACTTGTTTTTGCCTTTGTTTTCGCCCTTTCCT 287671 29 100.0 36 ............................. GTTGAAAAGCGCACCATTGTTTTAATTTTTTTAATT 287606 29 100.0 37 ............................. TTTTGTCGCATAAATTCTTTGATGTGGCGGACTGACG 287540 29 100.0 35 ............................. AACAGTATCATCACGTTGTTATTGCTGTCACCTGT 287476 29 100.0 36 ............................. TAACCAAGCATTGCCAAAAACTCGTCTGTTGATAAT 287411 29 100.0 36 ............................. TTCTATTGCAGAACAGAATGAATTGTATGCACAAGG 287346 29 100.0 37 ............................. TCGTTAATCATAATTGATGAAAGTCATCATGTGTTAG 287280 29 100.0 36 ............................. ACGGGTACCAGCTTTGATTTGCCGTTTTCAATTATT 287215 29 100.0 35 ............................. TTTATCACTCCTATGCTTTTCTTATTTCTGTAAAT 287151 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 287087 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 287022 29 100.0 36 ............................. TTAATAAATCCGATGGTGATGCCTATGTTATACGTC 286957 29 100.0 35 ............................. TAAAACATCGCTTCGTTATACAATGTCTTTTTATA 286893 29 100.0 35 ............................. TGTTATCTCCTGTGATGTAAAATAACCCTTCTATC 286829 29 100.0 37 ............................. CAAAACAGAGAAATCGTGTTCATTATCGGACATCTTA 286763 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 286699 29 93.1 0 .......................C....C | A [286674] ========== ====== ====== ====== ============================= ====================================== ================== 42 29 99.8 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : TAAGTATTAATGTTTTTAAAAAGTTTGATTTAT # Right flank : GTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCTAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCACAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATA # 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-50.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 1090-16 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYSH01000008.1 Listeria monocytogenes strain CDPHFDLB-F12M00816 CDPHFDLB_F12M00816_Contig_8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 1089 29 100.0 34 ............................. AGTTTTAGAAGTATGTTAGACGTTGACGAAAATC 1026 29 100.0 35 ............................. TCAAGCTGGTATGCACTTTTTGAGGTAAGCTATTG 962 29 100.0 37 ............................. GAAAAAGAACCAGTTAAAGAACCCGTGAAAGAAGAAC 896 29 100.0 36 ............................. AAAGAAAACTTGCAGCAGAATGACGCAAATCATGAA 831 29 100.0 38 ............................. AGAAATTCTCATGGCGCTAATAACCCCATGCCAGACGA 764 29 100.0 34 ............................. CATTTCAATCACTTCTTTTGATGTAACATTAAGC 701 29 100.0 36 ............................. TGTAACTGCAAACGTCTTTCCGCAAATTCGTGTAGT 636 29 100.0 36 ............................. TTATCCATTCCGTCATATCCCCACGCATCTGTTCCA 571 29 100.0 37 ............................. AGAGTTTCCAGCTGTAAGGCCAGATATTGATAATTTC 505 29 100.0 36 ............................. TATGAAATTATCTGCGAAGAGGGAAAACTAGACGAT 440 29 100.0 36 ............................. AGCGGTTTTTCTTCTATAGAAGTAACTTGCTTTTGT 375 29 100.0 37 ............................. GTTTATAGTATGTAAAACAAACACAGGAAAATATATC 309 29 100.0 35 ............................. TAAATTGTTAAGCTTGTCAACAACCTGCAAGAACT 245 29 100.0 37 ............................. GTTTCCAGTTTCTTCTATATAAACAACAAAAATAAAA 179 29 100.0 39 ............................. ACGAAAATAGCTAAATTGGATTTACTTGAGTCTTTTTTC 111 29 100.0 38 ............................. CAAAGCAAGTACAGAAGCGTATTATGCTCTATTAGAGT 44 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 17 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : TATTTAAGTATTAATG # 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: R [21.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.77 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 18194-17383 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYSH01000008.1 Listeria monocytogenes strain CDPHFDLB-F12M00816 CDPHFDLB_F12M00816_Contig_8, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================== ================== 18193 29 100.0 42 ............................. ACACAAATATGAAAAAACTTCTATTAAAAGCAATTCCATCCT 18122 29 100.0 36 ............................. AAACCTATCACATTTAAGTATTTAGAGATTCCTAAA 18057 29 100.0 36 ............................. GTAGTTTGCGAACGTTTAAAAACATAATTTGAAAAC 17992 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 17928 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 17863 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 17799 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 17736 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 17672 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 17607 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 17543 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 17477 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [17453] 17411 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ========================================== ================== 13 29 96.3 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTAATACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.81, 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], //