Array 1 432305-433663 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUQA01000009.1 Listeria monocytogenes strain CFSAN028761 AE233_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 432305 36 100.0 30 .................................... GGAAGACGCCGAGCGGATGCCTCCCAAAGC 432371 36 100.0 30 .................................... CGGAGTACCTGTTACAGATACGATAGTGAT 432437 36 100.0 30 .................................... CACCCGTTTCAGTGACGAACCCAACGCCAT 432503 36 100.0 30 .................................... AATCAATTTATCGTTTGTAACACAGCTTTT 432569 36 100.0 30 .................................... ACCTCGCGCACGCCAGTCTACACTCAGACT 432635 36 100.0 30 .................................... TTGAAATCAATCACATAGCATCTTCCATCG 432701 36 100.0 30 .................................... TTCTGTAGCAACCAGTTTTACATCCATAAC 432767 36 100.0 30 .................................... ATGATTTTATACTGGAACTACAAAAAGCGT 432833 36 100.0 30 .................................... TGTACGTCCATGTGCCAGATTTTTCGTCCA 432899 36 100.0 31 .................................... ATAGCACTACATTTGATACGATGATGAAAGT 432966 36 100.0 30 .................................... TCCGCTTCTTCCCATGTTGTGAAGCCTGCA 433032 36 100.0 30 .................................... CTGTCGGAACAAATTTCTACAGAAGAATAT 433098 36 100.0 30 .................................... AATTTCTTGCATTATCAATCACTCCCATTC 433164 36 100.0 30 .................................... ATCAAAACAAATTATAATACTCACATGATT 433230 36 100.0 30 .................................... TCTGTTTGCAGGCATTGGCGGATTTCGTTT 433296 36 100.0 30 .................................... GGAATACGTCTCCCACCGAGACCTACGAGC 433362 36 100.0 30 .................................... AGGTGTTTATAAGGTTATTGGTGACGATGA 433428 36 100.0 31 .................................... CGTCAGCAGAACAAAATGCGTTGTATGCGCA 433495 36 100.0 30 .................................... TCCGACAAGGAAGATCCGTTCCCGACTTTG 433561 36 100.0 28 .................................... TAATATTCTCCCCCCATCGCTAACAGGG 433625 36 86.1 0 .............A.....C.....T.A.......G | A,A,C [433650,433656,433659] ========== ====== ====== ====== ==================================== =============================== ================== 21 36 99.3 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : GATAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAGGCTATCTATATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCCCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGAGAACCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAATTTAAAAATCTTGTATGATTATATTCTAAATACAAGTAAAGATAATGAAACGATTGAACTATATACTGCTTGAAACAGCGAGGAAGATTTCCTGTTTTTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGACAGAGAACTATTAATAATTAGAAATGAAAACCGATATAACTTTTAGCACCATTC # 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: F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.30,-0.80] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [56.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 1208813-1207427 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUQA01000010.1 Listeria monocytogenes strain CFSAN028761 AE233_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1208812 29 100.0 38 ............................. AATTCTATCCCACAAACGTGTGTCTAAGGACATTGCCA 1208745 29 100.0 35 ............................. GAAGTTATCGATGGTGCTTTTTTTGCTTTCACGGG 1208681 29 100.0 34 ............................. ACAGCCAGGACATTAGAATTTATCTTACAACAGT 1208618 29 100.0 36 ............................. GAATTTATAAATACTCGTTCGATGGTTGTGGCACTT 1208553 29 100.0 37 ............................. TATTTCAGTTACTGATATTAAAGCAACATTTGAAGCA 1208487 29 100.0 34 ............................. ACTGCAAGGTTCCGTTGGTGATACAATCACTCTT 1208424 29 100.0 33 ............................. AAAAAAGTAAGGAATGGTACGAGCAAGAATTAA 1208362 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 1208297 29 100.0 37 ............................. AAGTCTACTTGGATTTAGCTCTACACCTGCAACATGA 1208231 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 1208168 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 1208102 29 100.0 35 ............................. TCGAATCAAATAATTTTAAAAGCTAAGCAAACAAA 1208038 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 1207975 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 1207910 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 1207845 29 100.0 36 ............................. CTCATAAGGATTTCGAGGCGGGTTAAACGACATGTA 1207780 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 1207716 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 1207651 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 1207585 29 100.0 36 ............................. GTCAATAACTAGACGAGCTAACGTTTGTCGCTGTTT 1207520 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 1207456 29 93.1 0 .......................C....C | A [1207431] ========== ====== ====== ====== ============================= ====================================== ================== 22 29 99.7 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCCAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCACAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAGCTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATA # 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: 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 1225979-1225169 **** Predicted by CRISPRDetect 2.4 *** >NZ_QUQA01000010.1 Listeria monocytogenes strain CFSAN028761 AE233_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1225978 29 100.0 36 ............................. TAACACAGAACATAGACATTTTCATGTTGCAGGTGT 1225913 29 100.0 35 ............................. ACAATAACCATATCGTAATCATCCCAACGACTATC 1225849 29 100.0 36 ............................. ACAACACAAACCACTGCCCAAGTTGACGGGACTTCT 1225784 29 100.0 37 ............................. AGCGCAACAGGTGCCATATACAAACTGCCTTTTTTTC 1225718 29 100.0 37 ............................. GAACCAGTAAGCATCATATTTTTATGAATTGCTTTTA 1225652 29 100.0 36 ............................. GAGTTATTAGAAAAAATGAAGCAACAAGGTATTGAA 1225587 29 100.0 36 ............................. TTTTACATGGGAGTCAAAAGAGCAACTTAATATACT 1225522 29 100.0 38 ............................. TTATAAAAGTACGCTTTAAATTTTTTCATGTTAACACT 1225455 29 100.0 34 ............................. GTTGGTAGGTTTAACCAAAGATGATCACCATGTC 1225392 29 96.6 34 ................G............ ATGTCCCACTGCTCAATTTTTAACGGGACTCCAG 1225329 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 1225263 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAACAGCAAAATAACCAAAAGTAATGACTTTA G [1225239] 1225197 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 96.0 36 GTTTTAGTTACTTATTTTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATTGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAATGGTTGGGGGAAGGGGAATTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATATGATTATCTATTTCCGTTATAATTATTCCTTACAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # 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 : GTTTTAGTTACTTATTTTGAAATGTAAAT # 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 GTTTTAGTTACTTATTTTGAAATGTAAAT 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 [16-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [78.3-58.3]%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], //