Array 1 281341-282081 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUER01000002.1 Listeria monocytogenes strain CFSAN026586 CFSAN026586_contig0001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 281341 29 100.0 36 ............................. TCTTTAGTTGTTACTTGTTGGTTAATGAGATCTACC 281406 29 100.0 36 ............................. TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC 281471 29 100.0 35 ............................. GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA 281535 29 100.0 37 ............................. TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC 281601 29 100.0 35 ............................. CGCTCTGACCTGTTCCTTGTGCAACACTCGTTACA 281665 29 100.0 34 ............................. TTTTCTACTCCTGCTTCTAAAATGTCGTTTATAA 281728 29 100.0 35 ............................. CTAAAACATCCTTCACTGTATCAACTCCTTTCTAT 281792 29 96.6 36 A............................ AAAATAGGAGGAAATAAATTATGACTATCAAATTAA 281857 29 100.0 35 ............................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 281921 29 96.6 37 ................A............ TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 281987 29 75.9 36 ......T.C.A.C...CA...T....... GCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC G [282010] 282053 29 79.3 0 ......A..T....AGA......A..... | ========== ====== ====== ====== ============================= ===================================== ================== 12 29 95.7 36 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : CGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCTGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG # Right flank : TGAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT # 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: 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 [0-16] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [58.3-75.0]%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 429590-431673 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUER01000003.1 Listeria monocytogenes strain CFSAN026586 CFSAN026586_contig0002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== =============================== ================== 429590 36 100.0 30 .................................... TCGTGATTTCTTCCTCATGCGCGCTTTTGA 429656 36 100.0 30 .................................... TTATCAGCAATTGAAACTATTAAAAATGAC 429722 36 100.0 30 .................................... TTGCCGACATTCTGTTACTCCGTTTATCCC 429788 36 100.0 30 .................................... CCTAGACCTAGATGCTACTAGAGTGGACGA 429854 36 100.0 30 .................................... TAATGCATCTTTATATTGATTTACCTCACC 429920 36 100.0 31 .................................... TGGAAATGAACGATTGTCGGCATTCACGAAT 429987 36 100.0 30 .................................... AGATATGGGCGAACTACCCGACGACAACAA 430053 36 100.0 30 .................................... GAAGAAGTCACTAGTTGGGTCAAGCAAGGC 430119 36 100.0 30 .................................... TAGTGCCAGTAAATTCAGTTCCTCCAAAGG 430185 36 100.0 30 .................................... TGTAAATGCGTTTAAATCGATGGGAAGCGC 430251 36 100.0 30 .................................... ACACGTGTGGAAGAAGAGGGCTCTGACGCT 430317 36 100.0 30 .................................... GTATGAAACGGTTAAATGGATCTCTATAGC 430383 36 100.0 30 .................................... ACCAAGTCTAAGTGTAGACTGGCGTGCGCA 430449 36 100.0 30 .................................... TTTAATGATTTTCTTTTGCGCGCCGTTGGT 430515 36 100.0 30 .................................... GAATTTTTTTGTAAGATCGACAACTTTTTC 430581 36 100.0 30 .................................... TTGATAATGATAAGGCTGTACGGATTATTC 430647 36 100.0 30 .................................... TAACAGTGTATTTCTATTGCTCGGTGTGTT 430713 36 100.0 30 .................................... TGGAGATAACGAAGAGTAAAGCGAGGCAGC 430779 36 100.0 30 .................................... GCGTTGAACCAGAAGGTGGGAAAGAAACAC 430845 36 100.0 30 .................................... TGGTAATTTAGTATCTATTACGGCTGGGAA 430911 36 100.0 30 .................................... AGTTCATGCAGATGTTCCAACAGACTATGA 430977 36 100.0 30 .................................... AACAGCTCGGTTCACAGCCCAAACAGGCGA 431043 36 100.0 31 .................................... TAGCATCCCTTTGTTGAAAACATAGTCTGAA 431110 36 100.0 30 .................................... TTAAATTTCCCTTCTAACACTATCTATCAA 431176 36 100.0 30 .................................... ACGTGATGGTCCTTGGAAAAGGAGATTACT 431242 36 100.0 30 .................................... TAGTTATTTGCTTAGAAATGTCATCCATCA 431308 36 100.0 30 .................................... AAATAATTTTTTTGATCATGTTGCAACAGC 431374 36 100.0 30 .................................... TGCAATATTGTCTGGATCTTTTTTCTTGTT 431440 36 100.0 30 .................................... AGTTAGATAGATAAACAAACTAAACAAAGG 431506 36 100.0 30 .................................... TAGTTTTTCTTCGTCCTCTAAACGCAAGCT 431572 36 100.0 30 .................................... TGTCTGAATGTAGTTGATATCTTTAACTTG 431638 36 72.2 0 .........A..CA.....C.....A.C.A..C.TA | ========== ====== ====== ====== ==================================== =============================== ================== 32 36 99.1 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAGCTGGATTTAGAAGAAGATGAAATAACGGTCATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATTCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG # Right flank : AGAGACAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAAACTATCTACATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAAGGACGGAGAAAAGTTTCCTCATCTCTATATATACTAGAGTGGCTTAGACTTCTTAAATCCGAATTTTGAAATGAATGTTGACCAAGATAAAGATATAAATAAATTGTTTCCCTATTCAATTCGTTTCAACTCAACTTGCAAATTTCAAGTTGCTACAAGCAGAGGGGATATACCGTTGAAAGTGGAGGAGCAAAATAATTGTTACGAGACCAAAAGTTTAAAAATTTTATATGATTATATTCTAAATGCGAGTAAAAATGGTGACACGCTTGAACTATATACTGTTTGGACAGCGAGAAAGATTTACCGTTAACGCACAAACCAGAACTGCTTTAACTATCGGAAATCTAGTTTTAAGTGACAGAGAGCTATTAATAATTAAAAGTGAGACA # 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: 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 28-327 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUER01000023.1 Listeria monocytogenes strain CFSAN026586 CFSAN026586_contig0025, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ==================================== ============================== ================== 28 36 91.7 30 .............T........T...........T. TTTTGCAAGGATAGTATTTACCTGCATAGG 94 36 97.2 30 ...........T........................ TTTAATTTTAATTGAATCGTTTGGTTGCTA 160 36 100.0 30 .................................... TTTAATGATTTTCTTTTTCGCGCCGTTGGT 226 36 100.0 30 .................................... GAATTTTTTTTTAAGATCGACCACTTTTTC 292 36 97.2 0 .....................T.............. | ========== ====== ====== ====== ==================================== ============================== ================== 5 36 97.2 30 GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC # Left flank : TGTCTTTTTTATAATGTGTCCTATTGAG # Right flank : TTGATAATGATAAAGCTGTACGGATTGTTCGTTTTAGAGCTATGTTAT # Questionable array : NO Score: 5.84 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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: R [4-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.68 Confidence: HIGH] # Array family : II-A/C [Matched known repeat from this family], //