Array 1 405298-407116 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUEQ01000003.1 Listeria monocytogenes strain CFSAN026587 CFSAN026587_contig0002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 405298 36 100.0 30 .................................... AATCGCGATGGATTTACTTTGTTAGCGATG 405364 36 100.0 30 .................................... CCTTCTATGAGTTCATGCTCTACGCCACTG 405430 36 100.0 30 .................................... CAAATTATAATACTCACATGATTAGTAACC 405496 36 100.0 30 .................................... GGGTTCAATTCCCCCAGATGTATAATGTGA 405562 36 100.0 30 .................................... AATCTCTGCACATTCTGTTTCGATGGGAGC 405628 36 100.0 30 .................................... ATGAACAGGCACAAGCGTTAGGGATAAATC 405694 36 100.0 30 .................................... AACCTTATCTCGATATGAAACAGAACTGGA 405760 36 100.0 30 .................................... TTTTCCACAGCTTTTTCTTGCGCATCAACG 405826 36 100.0 30 .................................... AGCTTCTCTTTCACATAATACGTGGTCATA 405892 36 100.0 30 .................................... GAACACTATCTCGATATTCATAATATATGA 405958 36 100.0 31 .................................... TTATAGTTTGTTTAAATGAACTTGTTTTCGC 406025 36 97.2 30 ................C................... TAATTATTGATGAATTCCCGGTCAATTGTT 406091 36 100.0 30 .................................... ATGACGATAAACCTCATCACTAACCTTTGT 406157 36 97.2 30 ................C................... TACACATTAGTAATATAACCAAATAGATCA 406223 36 100.0 30 .................................... TGATGGTGAGTTAAGAAAAGTGAAAAAAGA 406289 36 97.2 30 ................C................... ATTTCTGCTTGGATTGATTGCGGATTTTCT 406355 36 100.0 30 .................................... TAAGTTAGTACAACCGCAACTAGATGCTAC 406421 36 100.0 30 .................................... TGAAAAAAAGGAAAGTAAGCCAGTTACTTA 406487 36 100.0 30 .................................... ATATAGATGTGAAAGAAGTCCCGTCTACTT 406553 36 100.0 30 .................................... CGTTGGCAAGAAGCCTTTTTTCACTGGTGT 406619 36 100.0 30 .................................... CGTATCATCCACAAGCAATGTGACACCTGC 406685 36 100.0 30 .................................... AGTTATCAACAAGAAAAGACCTTCTGTGCA 406751 36 100.0 30 .................................... GTTAAATCCGCAAAAATCTTCGCTTTCGCT 406817 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 406883 36 100.0 30 .................................... TCTTATTCTGACGCTTTGGCCAAACAATTT 406949 36 100.0 30 .................................... CGGTTGTTTGATTATCTTGTGTTGCTTTAA 407015 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 407081 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 28 36 98.7 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACTGCTGTTCTTTGAAAACAAAATAATTTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 1178640-1175556 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUEQ01000001.1 Listeria monocytogenes strain CFSAN026587 CFSAN026587_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1178639 29 100.0 35 ............................. TTGGATTACAACGCATTGCGTGTGGGTAAACTTTC 1178575 29 100.0 36 ............................. AAAGTAAAAGCCGTAGAAGCTTCACCACAACCCCAA 1178510 29 100.0 37 ............................. ATACGTGAAGGAAATGGCATTGAGTGGGATGACGAGT 1178444 29 100.0 37 ............................. AGATTTAGAGAATGTAGAATTAGACAACACAGCTAAA 1178378 29 100.0 34 ............................. CTTTCTTCTATAGAAAGCAAACCGCTCGGAATTA 1178315 29 100.0 37 ............................. TCCTTTACTTTTGTCTTTTTTTCAATTTGTTTGACAG 1178249 29 100.0 34 ............................. AAGGCCGCAGACTTGGAGAAAGTTGCGACGTTTT 1178186 29 100.0 35 ............................. GTAATTTTCGCGTTTATAAACAGCCATTGAGACAC 1178122 29 100.0 38 ............................. ATATATCTTACCATAAAACTATCTGTGTCCATGTTTAA 1178055 29 100.0 36 ............................. TTTTTTCTAAGCGTTCGATTTTCGTGTCTTTTTCTA 1177990 29 100.0 36 ............................. AAACCAAGGATGGTGAAATCGTTTATTACTTGTCTA 1177925 29 100.0 37 ............................. GTTCTGAATCAGAAGTTCCATTTCCAACATTTAAATT 1177859 29 100.0 35 ............................. CCCATTAAAAATTTGAGATACGTTTTCTGCTTCGA 1177795 29 100.0 36 ............................. AAATGCAAGTCATTTTTCGAGCAAAAGAAAAAGCCT 1177730 29 100.0 37 ............................. TCCCTAAGCGAAAACCTCCTACCCCAGCAAATAAATC 1177664 29 100.0 34 ............................. TTCAAATTATATGTTACTTTTTACAAGAAATTCC 1177601 29 100.0 38 ............................. GTGAACTCTGTCCCGCCGAAGGGAGCCGTCCAATCGTC 1177534 29 100.0 35 ............................. CTAAAAAGGATTGGCAGAATGGAAATGTGTACGTA 1177470 29 100.0 36 ............................. ACCATTACCACCAAAGTCCCTACACTCAATACTACC 1177405 29 100.0 34 ............................. TTCGTAATCTGTAAGGACTTCTTCACCATCCTTC 1177342 29 100.0 37 ............................. ATAATTTGATTTTGGTTACTTTCTGTATTGGTTTGTT 1177276 29 100.0 36 ............................. GAAAGACTGGTGGTACATTGAGCAAGATGATTATAA 1177211 29 100.0 36 ............................. ATTATATACACATATCCATACACATATCCTACACAA 1177146 29 100.0 36 ............................. ATTTTTTTATTCCAGCTTTTGCGTATCCGGCTTTTT 1177081 29 100.0 35 ............................. TTGTTTAGCTCCGTCAATTGAAAGTCTCGCAATAG 1177017 29 100.0 37 ............................. TTCTCGTAACTCTTGACGATTGCATTTTTTTACTCTC 1176951 29 100.0 37 ............................. TTTTGTCGCATAAATTCTTTGATGTGGCGGACTGACG 1176885 29 100.0 35 ............................. AACAGTATCATCACGTTGTTATTGCTGTCACCTGT 1176821 29 100.0 36 ............................. TAACCAAGCATTGCCAAAAACTCGTCTGTTGATAAT 1176756 29 100.0 36 ............................. TTAATAAATCCGATGGTGATGCCTATGTTATACGTC 1176691 29 100.0 35 ............................. TAAAACATCGCTTCGTTATACAATGTCTTTTTATA 1176627 29 100.0 36 ............................. GTCAATAACTAGACGAGCTAACGTTTGTCGCTGTTT 1176562 29 100.0 35 ............................. TGTTATCTCCTGTGATGTAAAATAACCCTTCTATC 1176498 29 100.0 37 ............................. CTTGTTAAGTCCCCACTTCCATTAAAATCGTAATTGT 1176432 29 100.0 37 ............................. TTGGATTTTATTAAATACAGAGTCACGGATTGTATTT 1176366 29 100.0 36 ............................. TCAGTTTGGTTCCAGCAGACATTACAATTCCTTGTA 1176301 29 100.0 37 ............................. ATATTACTATTTGAAAAAGTGCGATCTGTCACAATTA 1176235 29 100.0 35 ............................. AATATAATCATGTAGGCCCATCTAAATTGCTCGAC 1176171 29 100.0 37 ............................. ATGAATGTATTAGCTACATGGACAACTATGCAACAGT 1176105 29 100.0 35 ............................. TACGATAATACGAGTTTTTCAATAGGCAGACCTCC 1176041 29 100.0 36 ............................. AGAAATATGGGAAGCTGGACCAGAAAACTTGGCAAG 1175976 29 100.0 35 ............................. TTTATTGTCGATAAGCTCATGACAGATGAATCACT 1175912 29 100.0 36 ............................. ACGTTTGCGGTAGTTTTACCGGGCACGGTCAAATAT 1175847 29 100.0 37 ............................. AAGCTACCCCTGCAAGACATGAAATAATCGCAATGCC 1175781 29 100.0 36 ............................. AGAGAAATCTCAAGAGCCAGCCAAGCAAGAGACATC 1175716 29 100.0 36 ............................. GGCTTTCTGGAATTGTTTCGCTGACATCCCTGCCAG 1175651 29 100.0 37 ............................. AAAAACTATGCAATTAGCAAAGTGATTTTATGTAATT 1175585 29 93.1 0 .......................C....C | A [1175560] ========== ====== ====== ====== ============================= ====================================== ================== 48 29 99.9 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGATATGTATGTAATTTTAATTTATGATATTTCAATCGAAAATGGTGGAGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGCGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATCAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGGATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAGATTTAGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGCGAAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAATAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTTTTAAAATTTAAACCCCAAAAATAAAAAAGGCCAGGACCTAAATCCAAGCCTTTTCCTACACTCCTCTAAACCAACAAAACCGCAACCAACGCCAAAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTAGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTCTCCGCCATCCCTGCTCCCGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATA # 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: R [3-0] 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 [0.27,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 1195416-1194932 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUEQ01000001.1 Listeria monocytogenes strain CFSAN026587 CFSAN026587_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1195415 29 100.0 35 ............................. ACGGGGTCCGTGCCATGATGACTGTAAGCGAAAAC 1195351 29 100.0 37 ............................. TTAGCTGAATTTGGAATCAAAGAAAAAGATTTTCTAA 1195285 29 100.0 35 ............................. TTTGCGATGTGGTGTAAGCTAACGCCATAATCTTT 1195221 29 100.0 35 ............................. TCTGTAAAATCAAAAGTATCATAGAAACGATCTTC 1195157 29 96.6 36 ................G............ GGCACAGTCTTCACGATTTCGGGGATGGGGAAAACT 1195092 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAGAGTGTAGTATT 1195026 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1195002] 1194960 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 8 29 93.5 36 GTTTTAGTTACTTATTTTGAAATGTAAAT # Left flank : GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGGAAGGGGAATTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCCAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTGAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATTAGCGAGATAGAAATTT # Questionable array : NO Score: 5.92 # Score Detail : 1:0, 2:3, 3:0, 4:0.68, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.98, # 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 : GTTTTAGTTACTTATTTTGAAATGTAAAT # 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 GTTTTAGTTACTTATTTTGAAATGTAAAT 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: R [15-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-58.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //