Array 1 497498-499054 **** Predicted by CRISPRDetect 2.4 *** >NZ_LSPR01000003.1 Listeria monocytogenes strain CFSAN026603 CFSAN026603_contig0002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 497498 36 100.0 30 .................................... GCATCCACATATTTAAAATATGAAACAGGA 497564 36 100.0 30 .................................... TGATTTTCGTGTCGTTTATGTCAGTGATCG 497630 36 100.0 30 .................................... TATTGCTTAATTTTACTGCGGTATTAATAT 497696 36 100.0 30 .................................... TATTTAATGCTTTCTCTCTGTTTATGTCTA 497762 36 100.0 30 .................................... TTTACGAAGTGCCGTTTATAGTCGAGATGG 497828 36 100.0 30 .................................... ATGCGTTTGGTACAGTACCTTGAACAACGT 497894 36 100.0 30 .................................... AGTCCAACAACCGCCTCCGTGTGTGTTTCT 497960 36 100.0 30 .................................... CTTTCATCAAGTGTATTTTTTGCGACAAGA 498026 36 100.0 30 .................................... ATCAATCGACAATATAAATACGCATCATCT 498092 36 100.0 30 .................................... TTTAGGGAAGCGCCCTTCTTCCCGTTGAAA 498158 36 100.0 30 .................................... ATACGAATTCTTTATCAAGGGTCAGAACGG 498224 36 100.0 30 .................................... CCGATAGTTTTTTAAAAGTAACTTTACATT 498290 36 100.0 30 .................................... CTTATGCACGATTTAGATTACTACATAATT 498356 36 100.0 30 .................................... GTATTTACAAAGTATCTATCCGAGTCCATA 498422 36 100.0 30 .................................... TAAAAAAATACCAAGCGCAACACTCATTAA 498488 36 100.0 30 .................................... TTTAATTTCTTCCATCAGTCCAGCGGGAGC 498554 36 100.0 30 .................................... AGGTGGAGACTTCGGCTCTGGTTACTCATT 498620 36 100.0 31 .................................... CAAGACGGATGAGCTTGGCGACAATTTATCA 498687 36 100.0 30 .................................... ATATTCAAATGAATCAACTAATACTTTTTT 498753 36 100.0 30 .................................... TTTAGTTTATCAGTTTATCACAATGGAAGA 498819 36 100.0 30 .................................... CAGCTCTTTAGATCTAATGCTGTATAGCTT 498885 36 100.0 30 .................................... ACAATAAGATTTTTGAAGGGGATATAGGCT 498951 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 499017 36 77.8 0 ............CA.....C.....T.A....T.GA | A,A [499042,499048] ========== ====== ====== ====== ==================================== =============================== ================== 24 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAATTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTATATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCTCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGGGAATCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAGTTTAAAAATCTTGTATGATTATATTCTAAATACGAGTAAAGATAATGACACGCTTGAACTATATACTGCTTGGAACAGCGAGGAAGATTTCCTGCTATTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGATAGAGAACTATTAATAATTAAAAAAGAAAATCGATATAACTTTTAGCACCATT # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [56.7-68.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 344709-343962 **** Predicted by CRISPRDetect 2.4 *** >NZ_LSPR01000004.1 Listeria monocytogenes strain CFSAN026603 CFSAN026603_contig0003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 344708 29 100.0 37 ............................. AGCGTTTTTCTTTTTCGCTTCATTTGATAAATCTTCC 344642 29 100.0 36 ............................. AGTATTTACTTAGACAAACGCGCTCAAATTGAGCAT 344577 29 96.6 38 ................T............ ACAGTCAGTTTGTGCTCATTCACTTGAACTGCATCTTT 344510 29 96.6 37 ................T............ AGCGCAACAGGTGCCATATACAAACTGCCTTTTTTTC 344444 29 100.0 37 ............................. GAACCAGTAAGCATCATATTTTTATGAATTGCTTTTA 344378 29 100.0 36 ............................. GAATTATTAGAAAAAATGAAGCAACAAGGTATTGAA 344313 29 100.0 36 ............................. TTTTACATGGGAGTCAAAAGAGCAACTTAATATACT 344248 29 96.6 34 ................T............ GTTGGTAGGTTTAACCAAAGATGATCACCATGTC 344185 29 100.0 34 ............................. ATGTCCCACTGCTCAATTTTTAACGGGACTCCAG 344122 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 344056 29 75.9 36 ......T.C.A.C...CA...T....... GAAGAAACAGCAAAATAACCAAAAGTAATGACTTTC G [344032] 343990 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ====================================== ================== 12 29 95.1 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGGAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATATGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 5.89 # Score Detail : 1:0, 2:3, 3:0, 4:0.75, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.88, # 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 : GTTTTAGTTACTTATTTTGAAATGTAAAT # 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 [15-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-60.0]%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], //