Array 1 293133-293420 **** Predicted by CRISPRDetect 2.4 *** >NZ_RBYZ01000001.1 Listeria innocua strain Lin13-001 Listeria_innocua_Lin13_001_Contig01, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 293133 29 100.0 35 ............................. GTCATTATCGGGGATATTGAGGAAACTGTGGCTGT 293197 29 100.0 36 ............................. GTTTGGAACAACACCAAACTAAATAGCGGTAAAATC 293262 29 100.0 35 ............................. GATCAAGGATTGCAAATACACAAGTTTGAATTTAT 293326 28 93.1 35 .......-......A.............. ACAATAATTTTACTCTTTTTATCCATTTTTCCGCG 293389 29 82.8 0 T...........C..CA.........C.. | A,C,C [293411,293413,293415] ========== ====== ====== ====== ============================= ==================================== ================== 5 29 95.2 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTGCCACAACTTCAGCTGACATTTTACTTGAAAAAGGGGCAGTAGAAGTAATCGCGTGCGCAACCCATTCAGTCATGGCTGGAGACGCGACTGAACGCTTGCAAAACTCAAGAATCAAAGAAGTCATTACATCCGACTCTATCGACCTTCCAGAAGAAAAACAATTCGAAAAACTAACAACCATCTCCATCGGCCGCATCCTAGGCCGCGCAATCGAAGGCGTCCAAGAAAACCGTTCATTGCATCCGTTATTTTAAAGGATAAGTAGAAAACAGTAACTAATAGAGTTGCTGTTTTTTGTTTTTAGTAAACTATCGACCAGCAGTAACGTAAAAAACACTGAAAACCGACAGAAAGTTGTGAATGCTTGGAGGAAGCGGAGTTTAGAGATATTTGCTTTGAAAAAGTATGCTGGCAAAAGTAGATTTTATCTGATTTTGAACAGGTCGACAGAAACAGCCTTTTGAGGTAAGATGGGAGTAAGAAGAAAATCGCACGG # Right flank : TTTAAAAATTACAGTTTTAAATTAACTCCCTAAAAAATGCCTTTAACAACCATTGACATTTACCAACTCTCTCAAAAACTCAAACATAATCTGGAGGACATCAACATGAAAAAAGTTCTAATGCCACTTATGCTACTCGCAGTTTTATTATATGGGTGTTCATCACAAAACGAAGAAGTAACGAAAGAAACTGCCATTTCGAAGATGATTTCTATACGGGCGGACTACACTATTCCAGCAAATTTGGATGAACTAGCAGCCAACAGTGATTCTATTGTTAAAGTGAAATTTCTACAGAATAAAGACATCGGTAAAAATGGAAGTACGATTAGTGAAGTAGAGATTTTAAAAAACTACAAAGGTAATTTTAAAAAAGGCGAAAAAGTAGATATTTCGGAACCGTGGTATTTAAGTGATGATAAATATGTCGCGGTTGAAAACTATATTGCGCTTGAAAAAAATGAAGAATATACCTTGTTTCTAAACGAGAGCGACGATAA # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 : 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: F [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-1.20,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [53.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 1 6177-5352 **** Predicted by CRISPRDetect 2.4 *** >NZ_RBYZ01000003.1 Listeria innocua strain Lin13-001 Listeria_innocua_Lin13_001_Contig03, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 6176 36 100.0 30 .................................... CAGTCATAGATGACGCCTTAAAAAGAGGCA 6110 36 100.0 30 .................................... TTCAAAATGATGTATACTACCGTCGGGATT 6044 36 100.0 30 .................................... AGTTTAGCTTCGTGTCTTCAAAGGTAAACA 5978 36 100.0 30 .................................... CTTTACCAATTTCGTCGTATTCTTTGTGAT 5912 36 100.0 29 .................................... AGCTTAGACATGTATTTAGCCGTAACCTT 5847 36 100.0 30 .................................... AAAAATAACAAGCTTGTTGACTTTAAGAAG 5781 36 100.0 30 .................................... AAATCACCTTCGTTTGTTTCTGTGCTATCG 5715 36 100.0 29 .................................... TAATAGCATTGCTTTGCGTCATCCCTTCA 5650 36 100.0 30 .................................... GCAAACACAACGCGATTTTGTTCGACGATA 5584 36 100.0 30 .................................... CCAGCTCAAGCCCTCGGCGCTTACGAACCA 5518 36 100.0 30 .................................... CTCGAAAACAGTCACACGTTTATCCTTTCC 5452 36 100.0 30 .................................... GGTTTATATTTGGTATAGTGAAAAATAAAA 5386 35 86.1 0 ..............C.....C....A....-...C. | ========== ====== ====== ====== ==================================== ============================== ================== 13 36 98.9 30 GTTTTAGAGCTATGTTATTTTGAATGCTAACAAAAC # Left flank : TTGATAAGCTGACCGCGACGATTAGTGAGTTGATTGGTTACGAGCTTCTGGAACATGAACTGGATTTAGAGGAAGATGAAATTACAGTCATTGAATTATTCAAAGCTTTGGGTATCAAGATAGAGACAAAAAGTGATGCCGTTTTTGAAAAATTAATTGAAATAGTACAAGTCTATAAATACTTATCAAAGAAAAAATTGTTGGTTTTTATTAATGTATGTGCCTATTTAACAGAAGATGAGTTACTAGAGCTAAGGCGCTATGTCTCGTTAAACCAAGTAAAAGTTTTATTTGTTGAACCTCGAAAAGCAGAAGGGTTTTCGCAGGTTATCCTAGATTCAGATTATTTTTTACAAGTGGAAAAAGGAATGTAGAGCTCAAATGATCTTTGAAAACTAAATAGATTTTATGTGAACCATAAAATAAGCATTCAAAATTGAAATCTTGCTATGGATAAGTGGCGCGATTACGAAATCTAGGAGAATAAAAAATTCTACGAG # Right flank : ACATCTCTTAATCCACTCCAGCTAGAAAAAGTTACATCATTATGAAAGAAGGCCCCAACACATGACACAATACCACTACCTCGCTTCAAAAGCAGCACTAAAAACTACGACATTCGAAAATAAGACAAATTATATATATCAAAACGACTTAGACTTCCTGAGCTTGAATTTTGAAGAAAACGTTGATGAGCGTACAAATGAAAAATTTTCCTACTCCGAACATTTTAACCCAATTTGCAATTTCCAAGTCGCTATAAGTGAAGGGAAATTACCGTTAAAAGGTGAAGAGCAAAATAATGATTATGAATCTAAAAGTTTAAAAATACTACACGATTATATTATAAAAGCTAGTAAAGAAAGCGATATCCTTGAACTATACACTTCATGGAACTGCGAAGAAAACTTACCTTTGACGAATAAAACAGAATTAGCTATAGAAGATTTAACGCCAGAAAAGTTGATTTTAAGAGACAGAGAACTATTAATTATTAAAAATAAGA # 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 : GTTTTAGAGCTATGTTATTTTGAATGCTAACAAAAC # 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:72.22%AT] # Reference repeat match prediction: R [matched GTTTTAGAGCTATGTTATTTTGAATGCTAACAAAAC with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-0.50,-1.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [61.7-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.28 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //