Array 1 390864-393478 **** Predicted by CRISPRDetect 2.4 *** >NZ_MDRF01000013.1 Listeria monocytogenes strain A31 contig000013, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 390864 36 100.0 30 .................................... GCAATAGACCAGTTAGGTGTCACAGGTGCG 390930 36 100.0 30 .................................... GATAGTAGTATAATAACTGTGCTAATATGG 390996 36 100.0 30 .................................... TTCGTACCATAGTATACACATGCAGGGGCG 391062 36 100.0 30 .................................... CATATAGATGTTTCCTTTCTACTCGTATAT 391128 36 100.0 30 .................................... AAATATTATTCAATGCTGTAACTGTAAAAG 391194 36 100.0 30 .................................... TACTTTTATTGTCTGCTAAGAATACTACTA 391260 36 100.0 30 .................................... ATTGTACAAATTCCAAGTAACTCATCATTA 391326 36 100.0 30 .................................... TTTTTCACGTTTGTACTGTCTCTCCTCGTA 391392 36 100.0 30 .................................... TAACTTTAGATACTGCTAAAGAATTAGCAA 391458 36 100.0 30 .................................... TGTCTGAATGTAGTTAATATCTTCAACTTG 391524 36 100.0 30 .................................... CTTCAGTTTCACCTGTGAATACGCCGTTTA 391590 36 100.0 30 .................................... GCGCTTCAGTTTCAGCATTGGTCTTCTTAG 391656 36 100.0 31 .................................... TCTCTTGCATTTGGTTCTGAATAATCTCGTA 391723 36 100.0 30 .................................... AGAGCAATGTAGTCATTCAGCCAATGCCCT 391789 36 100.0 30 .................................... ATATGGGGGCTTATTGTATGGCTAATATAC 391855 36 100.0 30 .................................... ACGGGGCATTTAATGTTGGCAAGCGCAATT 391921 36 100.0 30 .................................... TCCTCAGATAAGGTTTAGTACGCAAGACTC 391987 36 100.0 30 .................................... TCCACTTCGACGCTGGACGGGCTCTCCTCA 392053 36 100.0 30 .................................... CAATGCTTGGGGCTATGATGGCATGGATAA 392119 36 100.0 30 .................................... CTCTTTTCGATATTCCGGAAGAGGTACTCC 392185 36 100.0 30 .................................... CTTTTGTGTCTTCGGTAGCTTTGTCCATTA 392251 36 100.0 30 .................................... CCAGAGTCGCTTTTTCTTCCGGCCAGTCTG 392317 36 100.0 30 .................................... GTGTGTTATCTATTTGTAGCGTGGGTGTAT 392383 36 100.0 30 .................................... ATATACAATGTCTAAGCTTAATCTTTCGGT 392449 36 100.0 30 .................................... GAAATAATATTGATAATATCGCTCTTGCTA 392515 36 100.0 30 .................................... AGTATTTATTATCTCTATTACTTTTGTATA 392581 36 100.0 30 .................................... CGTATTCAAAAGTATATCCGCTAGCCTCAA 392647 36 100.0 30 .................................... TAGGTTTAGGGAGTAAATTAGCTCCTTTGG 392713 36 100.0 30 .................................... GGTAAAACAAGCATCGGCGAAGCAGTAACA 392779 36 100.0 30 .................................... TCCTAAATCTGAAAACAAAAACTACGAGTT 392845 36 100.0 30 .................................... TATTGGTGCCGCGATTAAAGTGTTTGACTT 392911 36 100.0 30 .................................... AAAGCAATAAATCAGATCATAAAGGAGCCT 392977 36 100.0 30 .................................... CGACGGAAAAATTAGACGACGCTAATGTGC 393043 36 100.0 30 .................................... GGGCAACGATATTTGTAGATAACAGGGAGT 393109 36 100.0 30 .................................... TACGATGTTAAGCGGTGGAGTAGATCAGTA 393175 36 100.0 31 .................................... TATAGTCTGTTTTTTCGTAAGTGAGCAGCGC 393242 36 100.0 30 .................................... TTGGGCAAAATGACCGTAATAAATCCATTC 393308 36 100.0 30 .................................... TTAGCACTTATATAGAAGCCCCGCCCCTAC 393374 36 100.0 30 .................................... AGTGATGGGGAAGAGATTGAACTTATGTTT 393440 36 86.1 0 .............A.....C.....T.A.......G | A,A,C [393465,393471,393474] ========== ====== ====== ====== ==================================== =============================== ================== 40 36 99.7 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACAGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACTGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # 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: R [56.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.27 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 1173991-1172662 **** Predicted by CRISPRDetect 2.4 *** >NZ_MDRF01000017.1 Listeria monocytogenes strain A31 contig000017, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1173990 29 100.0 37 ............................. CAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGC 1173924 29 100.0 36 ............................. ATTACAGTACAAGCAAGGGTTATTGAGTTAAATATT 1173859 29 100.0 35 ............................. ATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGG 1173795 29 100.0 37 ............................. TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG 1173729 29 100.0 36 ............................. TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC ATC [1173720] 1173661 29 100.0 36 ............................. CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG 1173596 29 100.0 36 ............................. AAGTTCAAAACCTCCCACACCCGCTATGAATAAATT 1173531 29 100.0 37 ............................. TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC 1173465 29 100.0 35 ............................. GTAACAAGTAGTGTTATACCTGCAACAATACCAGT 1173401 29 100.0 36 ............................. TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG 1173336 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 1173271 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 1173206 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 1173143 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 1173080 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 1173014 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 1172951 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 1172886 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 1172820 29 100.0 36 ............................. GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTT 1172755 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 1172691 29 93.1 0 .......................C....C | A [1172666] ========== ====== ====== ====== ============================= ===================================== ================== 21 29 99.7 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACTCAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCACAACCAACGCCAAAACCGCCGGCAAGCCCTGTTTCACCAAAATCCCCTTAGAAGAAGTCGCTCCGCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTCTCCGCCATTCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGTGTCTGTACTTTCTTATTCGCAAGTAGTTCTTTCTCCACACCAAACGTCTTGGCTGCAAGGTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTCCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATA # 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: F [3-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,4.5 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //