Array 1 2004-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYET01000001.1 Listeria monocytogenes strain CFSAN044729 CFSAN044729_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 2003 36 100.0 30 .................................... AATGAAACAAATAGGATTTGGACAACTCGC 1937 36 100.0 30 .................................... GCAATAGACCAGTTAGGTGTCACAGGTGCG 1871 36 100.0 30 .................................... GATAGTAGTATAATAACTGTGCTAATATGG 1805 36 100.0 30 .................................... TTCGTACCATAGTATACACATGCAGGGGCG 1739 36 100.0 30 .................................... CATATAGATGTTTCCTTTCTACTCGTATAT 1673 36 100.0 30 .................................... AAATATTATTCAATGCTGTAACTGTAAAAG 1607 36 100.0 30 .................................... TACTTTTATTGTCTGCTAAGAATACTACTA 1541 36 100.0 30 .................................... ATTGTACAAATTCCAAGTAACTCATCATTA 1475 36 100.0 30 .................................... TTTTTCACGTTTGTACTGTCTCTCCTCGTA 1409 36 100.0 30 .................................... TAACTTTAGATACTGCTAAAGAATTAGCAA 1343 36 100.0 30 .................................... TGTCTGAATGTAGTTAATATCTTCAACTTG 1277 36 100.0 30 .................................... CTTCAGTTTCACCTGTGAATACGCCGTTTA 1211 36 100.0 30 .................................... GCGCTTCAGTTTCAGCATTGGTCTTCTTAG 1145 36 100.0 31 .................................... TCTCTTGCATTTGGTTCTGAATAATCTCGTA 1078 36 100.0 30 .................................... AGAGCAATGTAGTCATTCAGCCAATGCCCT 1012 36 100.0 30 .................................... TCCTCAGATAAGGTTTAGTACGCAAGACTC 946 36 100.0 30 .................................... TCCACTTCGACGCTGGACGGGCTCTCCTCA 880 36 100.0 30 .................................... CAATGCTTGGGGCTATGATGGCATGGATAA 814 36 100.0 30 .................................... CTCTTTTCGATATTCCGGAAGAGGTACTCC 748 36 100.0 30 .................................... CTTTTGTGTCTTCGGTAGCTTTGTCCATTA 682 36 100.0 30 .................................... CCAGAGTCGCTTTTTCTTCCGGCCAGTCTG 616 36 100.0 30 .................................... GTGTGTTATCTATTTGTAGCGTGGGTGTAT 550 36 100.0 30 .................................... ATATACAATGTCTAAGCTTAATCTTTCGGT 484 36 100.0 30 .................................... GAAATAATATTGATAATATCGCTCTTGCTA 418 36 100.0 30 .................................... AGTATTTATTATCTCTATTACTTTTGTATA 352 36 100.0 30 .................................... CGTATTCAAAAGTATATCCGCTAGCCTCAA 286 36 100.0 30 .................................... TAGGTTTAGGGAGTAAATTAGCTCCTTTGG 220 36 100.0 30 .................................... GGTAAAACAAGCATCGGCGAAGCAGTAACA 154 36 100.0 30 .................................... TCCTAAATCTGAAAACAAAAACTACGAGTT 88 36 100.0 0 .................................... | ========== ====== ====== ====== ==================================== =============================== ================== 30 36 100.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACAGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACTGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : CTATTGGTGCCGCGATTAAAGTGTTTGACTTGTTTTAGAGCTATGTTATTTTG # 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: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [56.7-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 1202-3 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYET01000030.1 Listeria monocytogenes strain CFSAN044729 CFSAN044729_contig_0000030, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1201 29 100.0 37 ............................. CAATGCTTAAACCGAGAGCATCAAATTGTTCCCATGC 1135 29 100.0 36 ............................. ATTACAGTACAAGCAAGGGTTATTGAGTTAAATATT 1070 29 100.0 35 ............................. ATTAATGATAAGAGCGGAAAGAAAACTTTCAAGGG 1006 29 100.0 37 ............................. TCCCCCTTAAGATACAAACTCGATTTGACAGGTGCAG 940 29 100.0 36 ............................. TCGTTTATGACCTTATGAAAGAGTTAACACCTCGAC ATC [931] 872 29 100.0 36 ............................. CTTCCTACTTTTTGACATAAAAAATAAGCCGAGTTG 807 29 100.0 36 ............................. AAGTTCAAAACCTCCCACACCCGCTATGAATAAATT 742 29 100.0 37 ............................. TTCGTAATTTTACGATTATACTTTTTAGTCAAATTAC 676 29 100.0 35 ............................. GTAACAAGTAGTGTTATACCTGCAACAATACCAGT 612 29 100.0 36 ............................. TGGAAATGGGAAGAAAGAAATGCACTGATTGTAGAG 547 29 100.0 36 ............................. GTCCACATCGACAATAAAAAACACATTGTATCACTT 482 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 417 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 354 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 291 29 100.0 37 ............................. ACAAGTGCTAGAACAGAAGTTATAATTTGAACATTAC 225 29 100.0 34 ............................. AGAAGCGTTAGCGGCATTGTTCGAAAGTAATTTA 162 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 97 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 31 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 19 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : TGT # 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: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [1.7-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.77 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 5815-5181 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYET01000035.1 Listeria monocytogenes strain CFSAN044729 CFSAN044729_contig_0000035, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 5814 36 100.0 30 .................................... TCCTAAATCTGAAAACAAAAACTACGAGTT 5748 36 100.0 30 .................................... TATTGGTGCCGCGATTAAAGTGTTTGACTT 5682 36 100.0 30 .................................... TATTGGTGCCGCGATTAAAGTGTTTGACTT 5616 36 100.0 30 .................................... AAAGCAATAAATCAGATCATAAAGGAGCCT 5550 36 100.0 30 .................................... CGACGGAAAAATTAGACGACGCTAATGTGC 5484 36 100.0 30 .................................... GGGCAACGATATTTGTAGATAACAGGGAGT 5418 36 100.0 30 .................................... TACGATGTTAAGCGGTGGAGTAGATCAGTA 5352 36 100.0 31 .................................... TATAGTCTGTTTTTTCGTAAGTGAGCAGCGC 5285 36 100.0 30 .................................... AGTGATGGGGAAGAGATTGAACTTATGTTT 5219 36 86.1 0 .............A.....C.....A.A.......G | C,A,T [5184,5187,5192] ========== ====== ====== ====== ==================================== =============================== ================== 10 36 98.6 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : TTGTTATTTTGAATGCTACCAAAACGGTAAAACAAGCATCGGCGAAGCAGTAAC # Right flank : ATAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAGGCTATCTATATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCCCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGAGAACCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAATTTAAAAATCTTGTATGATTATATTCTAAATACAAGTAAAGATAATGAAACGATTGAACTATATACTGCTTGAAACAGCGAGGAAGATTTCCTGTTTTTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGACAGAGAACTATTAATAATTAGAAATGAAAACCGATATAACTTTTAGCACCATTCG # 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: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.80,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.87 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], //