Array 1 7302-5218 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXTH01000003.1 Listeria monocytogenes strain CFSAN046014 CFSAN046014_contig_0000003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 7301 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 7235 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 7169 36 100.0 30 .................................... GAATATACAGACAAGATTGACGCTCCTTTA 7103 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 7037 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 6971 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 6904 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 6838 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 6772 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 6706 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 6640 36 97.2 30 .............A...................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 6574 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 6508 36 100.0 30 .................................... ACCAAGTCTAAGTGTAGACTGGCGTGCGCA 6442 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 6376 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 6310 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 6244 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 6178 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 6112 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 6046 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 5980 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 5914 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 5848 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 5781 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 5715 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 5649 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 5583 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 5517 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 5451 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 5385 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 5319 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 5253 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 32 36 99.0 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : GAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAAAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACAC # 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 [10-1] 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 1176850-1176175 **** Predicted by CRISPRDetect 2.4 *** >NZ_NXTH01000001.1 Listeria monocytogenes strain CFSAN046014 CFSAN046014_contig_0000001, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1176849 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 1176784 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 1176719 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 1176655 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 1176591 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 1176528 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 1176464 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 1176399 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 1176335 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 1176269 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1176245] 1176203 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 95.3 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # 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 [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], //