Array 1 1180615-1179874 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUBA01000004.1 Listeria monocytogenes strain CFSAN012299 Chromosome4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1180614 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 1180549 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 1180484 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 1180420 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 1180354 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 1180290 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 1180227 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 1180163 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 1180098 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 1180034 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 1179968 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [1179944] 1179902 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], // Array 1 939919-937901 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUBA01000003.1 Listeria monocytogenes strain CFSAN012299 Chromosome3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 939918 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 939852 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 939786 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 939720 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 939654 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 939587 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 939521 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 939455 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 939389 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 939323 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 939257 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 939191 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 939125 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 939059 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 938993 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 938927 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 938861 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 938795 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 938729 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 938663 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 938597 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 938530 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 938464 36 100.0 30 .................................... ACGTGATGGTCCTTGGAAAAGGAGATTACT 938398 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 938332 36 100.0 30 .................................... CTAGAAGCTTTGACATTAATATTACGCTTA 938266 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 938200 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 938134 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 938068 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 938002 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 937936 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 31 36 99.1 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 [10-0] 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 [0.27,5.28 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], //