Array 1 429706-431261 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXST01000002.1 Listeria monocytogenes strain CFSAN046028 CFSAN046028_contig_0000002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 429706 36 100.0 30 .................................... TTAAAACAATGGTGCGCTTTTCAACTGGTT 429772 36 100.0 31 .................................... ACTGTTAAACATTACAAATAGTTATTCATAT 429839 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 429905 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 429971 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 430037 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 430103 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 430170 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 430236 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 430302 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 430368 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 430434 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 430500 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 430566 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 430632 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 430698 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 430764 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 430830 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 430896 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 430962 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 431028 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 431094 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 431160 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 431226 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 24 36 98.8 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # 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 1175548-1174807 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXST01000001.1 Listeria monocytogenes strain CFSAN046028 CFSAN046028_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1175547 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 1175482 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 1175417 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 1175353 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 1175287 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 1175223 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 1175160 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 1175096 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 1175031 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 1174967 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 1174901 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1174877] 1174835 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 95.7 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 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 [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 [0.27,5.28 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //