Array 1 54-478 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYGH01000016.1 Listeria monocytogenes strain CFSAN049281 CFSAN049281_contig_0000016, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 54 29 100.0 36 ............................. AGCGGTTTTTCTTCTATAGAAGTAACTTGCTTTTGT 119 29 100.0 37 ............................. GTTTATAGTATGTAAAACAAACACAGGAAAATATATC 185 29 100.0 35 ............................. TAAATTGTTAAGCTTGTCAACAACCTGCAAGAACT 249 29 100.0 37 ............................. GTTTCCAGTTTCTTCTATATAAACAACAAAAATAAAA 315 29 100.0 39 ............................. ACGAAAATAGCTAAATTGGATTTACTTGAGTCTTTTTTC 383 29 100.0 38 ............................. CAAAGCAAGTACAGAAGCGTATTATGCTCTATTAGAGT 450 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 7 29 100.0 37 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : TATTATGAAATGTAAATTATGAAATTATCTGCGAAGAGGGAAAACTAGACGATG # Right flank : ATTTAAGTATTAATGTTTTTAAAAAGTTTGATTTATTGTTTTAACTACTTATTA # 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 [63.3-78.3]%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], // Array 1 29-963 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYGH01000018.1 Listeria monocytogenes strain CFSAN049281 CFSAN049281_contig_0000018, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 29 29 100.0 35 ............................. TTTATCAATCCTATGCTTTTCTTTTTTCTTTAATT 93 29 100.0 35 ............................. TTTATCTTTATCTATTTCTCCAGTAATAGAGCACG 157 29 100.0 34 ............................. ACATTTTTATCTGAGAAAGGGTTTAGGGAAAATT 220 29 100.0 35 ............................. AAAAAAACAACTGCGCAAGAAGGGTATGAGCAATT 284 29 100.0 36 ............................. GTTGGACACCGTCAGCAGAGCTTATAAATCCACTGT 349 29 100.0 36 ............................. TTTTTCCATTCTTCTCGCCGATGTATTCCTTTTCTC 414 29 100.0 36 ............................. TGGTAAATTTTATAGGAATGTCAACACCTTGAATTT 479 29 100.0 36 ............................. CCAGAAATGGAGTGCGCGGTTGATTTTGGATTTAGC 544 29 100.0 37 ............................. AAGAACATTAGATGAACTTAAAGCGTCTGTTGAACAA 610 29 100.0 35 ............................. AAACCAGAGCCAGAAAAAGAAGTTGTGAAAGAAGA 674 29 100.0 37 ............................. ACGTCACTTGTTTTTGCCTTTGTTTTCGCCCTTTCCT 740 29 100.0 36 ............................. GTTGAAAAGCGCACCATTGTTTTAATTTTTTTAATT 805 29 100.0 37 ............................. TTTTGTCGCATAAATTCTTTGATGTGGCGGACTGACG 871 29 100.0 35 ............................. AACAGTATCATCACGTTGTTATTGCTGTCACCTGT 935 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 15 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : ATATGTCATTTCTTCGTTTTCAATTATTG # Right flank : TAACCAAGCATTGCCAAAAACTCGTCTGTTGATAATGTTTTAACTACTTATTA # 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 [36.7-61.7]%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], // Array 1 277-55 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYGH01000001.1 Listeria monocytogenes strain CFSAN049281 CFSAN049281_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 276 29 100.0 34 ............................. AGTTTTAGAAGTATGTTAGACGTTGACGAAAATC 213 29 100.0 35 ............................. TCAAGCTGGTATGCACTTTTTGAGGTAAGCTATTG 149 29 100.0 37 ............................. GAAAAAGAACCAGTTAAAGAACCCGTGAAAGAAGAAC 83 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 100.0 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : TAAAGAAAACTTGCAGCAGAATGACGCAAATCATGAAGTTTTAACTACTTATTAT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [63.3-56.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 17251-16570 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYGH01000001.1 Listeria monocytogenes strain CFSAN049281 CFSAN049281_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================== ================== 17250 29 100.0 42 ............................. ACACAAATATGAAAAAACTTCTATTAAAAGCAATTCCATCCT 17179 29 100.0 36 ............................. AAACCTATCACATTTAAGTATTTAGAGATTCCTAAA 17114 29 100.0 35 ............................. ACAGATCAAACTCCGGAAGGGTGATTGTAAATGGC 17050 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 16986 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 16923 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 16859 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 16794 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 16730 29 100.0 37 ............................. TTGGTTCCTTTGGAAAACAACAATAGCGTGTAGTATT 16664 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [16640] 16598 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ========================================== ================== 11 29 95.6 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGTTTACAAAATTCAAGTATCAAAGAAGTTATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATTTCTATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTTGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTAATACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 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 33-385 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYGH01000003.1 Listeria monocytogenes strain CFSAN049281 CFSAN049281_contig_0000003, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 33 29 100.0 36 ............................. TTAATAAATCCGATGGTGATGCCTATGTTATACGTC 98 29 100.0 35 ............................. TAAAACATCGCTTCGTTATACAATGTCTTTTTATA 162 29 100.0 35 ............................. TGTTATCTCCTGTGATGTAAAATAACCCTTCTATC 226 29 100.0 37 ............................. CAAAACAGAGAACGCGTGTTCATTATCGGACATCTTA 292 29 100.0 35 ............................. TTTTGAAATATGAGGACTTAGAAAATGAAAAAAAT 356 29 93.1 0 .......................A....C | C [379] ========== ====== ====== ====== ============================= ===================================== ================== 6 29 98.9 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : GATTTTCACCTGTTTCCGTATCTGCTTTTTTCG # Right flank : CGTCTTCTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCTAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCACAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAAT # 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 : 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: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-65.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //