Array 1 1214916-1212686 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXDX01000001.1 Listeria monocytogenes strain CFSAN022990 D2E18_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1214915 29 100.0 35 ............................. TCATTTAGAAATGAGTGGGAACGGTTTAGTGAAAA 1214851 29 100.0 36 ............................. TTCTTACTCTGTTTCAACATCTAAGGATAAAATCTC 1214786 29 100.0 37 ............................. TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG 1214720 29 100.0 36 ............................. TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC 1214655 29 100.0 36 ............................. CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG 1214590 29 100.0 36 ............................. AAGTTCAAAACCTCCCACACCCGCTATGAATAAATT 1214525 29 100.0 37 ............................. GTCTTTGCATTTGATGATGATTACTTTTTTAAAGTCT 1214459 29 100.0 35 ............................. ACGAGTATCAGCGCTAAAAGAGATTGTTAAGCGCC 1214395 29 100.0 36 ............................. TTAAGAACATAAGCTTCACTCTTTAAAGGGAGTAAA 1214330 29 100.0 37 ............................. AGTATCGCCTTCGCTAGGCGTTTCGGGCGGCGTTTCC 1214264 29 100.0 37 ............................. TGCCGCAAAAACGTTGGGGAACGTTGTTCAAGGTATT 1214198 29 100.0 36 ............................. ACTTTAGAGAAAGAAAAACAAGAAAAAGTAAAACTG 1214133 29 100.0 37 ............................. TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC 1214067 29 100.0 35 ............................. GTAACAAGTAGTGTTATACCTGCAACAATACCAGC 1214003 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 1213938 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 1213873 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 1213810 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 1213747 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 1213681 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 1213618 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 1213553 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 1213489 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 1213423 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 1213358 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTAGTT 1213294 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 1213231 29 100.0 35 ............................. AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAA 1213167 29 100.0 37 ............................. CAGTGATTATGCTAAGACCTACACAATCGTTATCACT 1213101 29 100.0 33 ............................. TAAGGTCATATAAGAAAAAATGTATTTTTTCCC 1213039 29 96.6 34 .......................C..... CAAGATATGCTAGAAATGGCGCAAATAGCGCGCG 1212976 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 1212911 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 1212845 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 1212781 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 1212715 29 93.1 0 .......................C....C | A [1212690] ========== ====== ====== ====== ============================= ===================================== ================== 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 1231803-1231186 **** Predicted by CRISPRDetect 2.4 *** >NZ_QXDX01000001.1 Listeria monocytogenes strain CFSAN022990 D2E18_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1231802 29 100.0 35 ............................. TTGGATGCAAAAACTTTAATAGCCTCTGCATCAAG 1231738 29 100.0 34 ............................. AAATCAACGGGTAAATATTTACTCACAGAGCTTC 1231675 29 100.0 38 ............................. CTGGTCCTGTGCTGATGATTGGCGGAAAACTAGTAACA 1231608 29 100.0 35 ............................. GTTGAACTAGAAAAACTGCTTGCTTGGGTAGATGA 1231544 29 100.0 37 ............................. CATTTCAATAGCTTCCTTTGATGTAACATTAAGCTCA 1231478 29 100.0 37 ............................. AGCGGTGTAGACAAAATAACTACAATTAAATTTTCCG 1231412 29 100.0 37 ............................. AGAACAGGTGCTGGGTCAACTTGCCCTCCCATTTTTT 1231346 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 1231280 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1231256] 1231214 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], //