Array 1 7138-5385 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYDS01000001.1 Listeria monocytogenes strain CFSAN044759 CFSAN044759_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 7137 36 100.0 30 .................................... TTTTGCCGGATGTGTAATACCTTTGAAACC 7071 36 100.0 30 .................................... TAGTAACACCAGAGGTTTTTAATGCGTACA 7005 36 100.0 30 .................................... TCATTCAAACGGAACATTTACGAATTAGTT 6939 36 100.0 30 .................................... TAAGCCTTCTTGGGCAGATAAAGATGTATC 6873 36 100.0 30 .................................... TATGTTATTTATAATACCTTCTTTGTTTCC 6807 36 100.0 30 .................................... AATATTTAGAGGAATTAGAGCGTACTAATG 6741 36 100.0 30 .................................... TACTGACCTTGACTATATCAAGTATAAACT 6675 36 100.0 30 .................................... AAAAATATTTATGCAAATCTGGCTGGAACA 6609 36 100.0 30 .................................... TTTTAAATATATTAGAGTCACTGTTAGCGG 6543 36 100.0 30 .................................... ATATAGATGTGAAAGAAGTCCCGTCCACCT 6477 36 100.0 30 .................................... TTCAACTACGGGTTTTGTCGGTAGCTTTGT 6411 36 100.0 30 .................................... ACTTGGCACGGAACTGTTTAGAGTCGGTTT 6345 36 100.0 30 .................................... TTCTTCTTCGTCTATTAACTCGCTCTCGTC 6279 36 100.0 30 .................................... CCAGAAAATGATGCTAATTAGTTTCCCTAC 6213 36 100.0 30 .................................... TACCATTACTTTTAGACCCTTTACGAATGC 6147 36 100.0 30 .................................... CTTTTTTCACTACTTTAATAGCAGAACTTT 6081 36 100.0 30 .................................... TAACTCTTCTTTCGTCATGTCGTGATGCGT 6015 36 100.0 30 .................................... TACAAATTACCGTGAAATTATGACTGCAGC 5949 36 100.0 30 .................................... ATCCCATTTTTCAACATAATAGGTAGCAAC 5883 36 100.0 30 .................................... TACGATGTTAAGCGGTGGAGTAGATCAGTA 5817 36 100.0 30 .................................... ACCATCCATGAAAGATTTAGAAATTTTACA 5751 36 100.0 30 .................................... CAAATATAAAATATTCAATAGTCCTATCTT 5685 36 100.0 30 .................................... TAAACATCGCTCATCGTGTCTTCTGTCGCT 5619 36 100.0 31 .................................... AAAGTACCGCAGTAAATAAGCCTGACTTCTC 5552 36 100.0 30 .................................... TAGCAAATTAACACTAGAATACGATTCAGG 5486 36 100.0 30 .................................... AGAACAACTACAAAACCAGCTTCTTGAGCG 5420 36 75.0 0 ............CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 27 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTTATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : GAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGATACAGTATTACTATCTTGCTTCGAAGTCGCTCTTAGAAAAAGGTGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATTCGAATTTTGAAATGAATGTTGACCAAGATAAAGATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTCGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATCTTATATGATTATATTCTAAATGCGAGTAAAAATAGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACACTATATA # 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: 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: R [9-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-56.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], // Array 1 215-55 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYDS01000017.1 Listeria monocytogenes strain CFSAN044759 CFSAN044759_contig_0000017, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 214 29 100.0 37 ............................. TGCAGCAATTAATGAAAAGCATTTACCAGGAACTTCC 148 29 100.0 36 ............................. ACACTCAATACTACCAACGCTACAAATACCATCATT 83 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 100.0 37 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAACGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : TAAATCAAAATGTAGGAGTGGTCAAATTGTTTAAAACGGTTTTAACTACTTATTA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: NA [0-0] Score: 0/0.41 # 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 [0.27,4.5 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 55-730 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYDS01000038.1 Listeria monocytogenes strain CFSAN044759 CFSAN044759_contig_0000038, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 55 29 100.0 36 ............................. CTGGTTACTCAACTGGCGACAGTAATACACCTCAAT 120 29 100.0 34 ............................. TTTGGATAGGTTGTTTCTGATAAATAGGTTCACG 183 29 100.0 37 ............................. AAGTCTACTTGGATTTAGCTCTACACCTGCAACATGA 249 29 100.0 34 ............................. AGAAAAAAAACATCTTTCCAATTTGTTGTTTTGC 312 29 100.0 36 ............................. TTGTTCGACGGCTTAGACAACCATCACGCTTCTTTA 377 29 100.0 36 ............................. TATAAAATATTGCCCAATGTGCGGAAGGAGTTTGGA 442 29 100.0 36 ............................. CTCATAAGGATTTCGAGGCGGGTTAAACGACATGTA 507 29 100.0 35 ............................. GCTTTTTTCAACAATTTTATCACCAGATGTCATTA 571 29 100.0 36 ............................. TGAGCAGTGTCACCTGTTTCCGTATCTGCTTTTTTC 636 29 100.0 37 ............................. AAGAAATCCGGGAAGTTTTGTTCTACAGAGCGAACGG 702 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : TTATTATGAAATGTAAATGTCCACATCGACAATAAAAAACACATTGTATCACTTG # Right flank : GTGTAATTCTTAATTCCGTATTGATTCGCTAGTTTTGTTTTAACTACTTATT # 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: F [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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [66.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 2265-1655 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYDS01000018.1 Listeria monocytogenes strain CFSAN044759 CFSAN044759_contig_0000018, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 2264 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 2200 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 2135 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 2071 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 2008 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 1944 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 1879 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 1815 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 1749 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1725] 1683 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 10 29 95.2 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 [75.0-60.0]%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], // Array 1 1-679 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYDS01000039.1 Listeria monocytogenes strain CFSAN044759 CFSAN044759_contig_0000039, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1 29 100.0 36 ............................. TTGCAAACCTAACTTATCTTTGTTTTTTTGCTTTTC 66 29 100.0 37 ............................. TTGGATTTTATTAAATACAGAGTCACGGATTGTATTT 132 29 100.0 35 ............................. TTAGAGATAACGTTAGCATCCGTGATAACTTGGTT 196 29 100.0 34 ............................. ATAAATTATCCGTATGTTCTTGAATTGTTTCTTC 259 29 100.0 36 ............................. CTGGTTTAAAAAAGAGTTTTTAGATCGCTTAGAAGA 324 29 100.0 36 ............................. TCAGTTTGGTTCCAGCAGACATTACAATTCCTTGTA 389 29 100.0 37 ............................. TTAGAAGCGGGACAGAAAAGAACTTTTCAAGATGTGT 455 29 100.0 36 ............................. GGTGAATTCGTCACAAGTATTAAGTCAATTACAGCG 520 29 100.0 37 ............................. GTTATTAAAGGCTATATAGACAAGGTCTTAAGCGAAC 586 29 100.0 36 ............................. AGAAATATGGGAAGCTGGACCAGAAAACTTGGCAAG 651 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : | # Right flank : AAATTTTTTGTTGATAAGCATGCAGGAGCAAACAAGTTTTAACTACTTATTAT # 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: F [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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //