Array 1 528528-527849 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYFT01000003.1 Listeria monocytogenes strain CFSAN049295 CFSAN049295_contig_0000003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 528527 29 100.0 36 ............................. TTCATTACAATACGGATAATATTCATGTTCATATTG 528462 29 100.0 35 ............................. TCGCTTGTGTATAAACACAAGTCTACCGCAACACC 528398 29 100.0 34 ............................. TAACTTAAATAAGCATAAGGAAATGCCGCGCATG 528335 29 100.0 36 ............................. GTAGCTAGCCCTTGCGGTCCAGATGGCGCTTTGCCG 528270 29 100.0 36 ............................. ACAGTCGCATACTTAGCAATTCTTTTCATGCTATCC 528205 29 100.0 36 ............................. ATTTAAGTATTAATGTTTTTAAAAAGTCTGATTTAT 528140 29 100.0 38 ............................. AGTCCCATATCGTGATAGTATGCTACGCGATCAAATTC 528073 29 100.0 35 ............................. CAAGTAACAGGAAAAGGACAAGTATATCTATTAAA 528009 29 100.0 37 ............................. TACAACATGAGCTGGCTATTCTCTTCTGCTGAAACAG 527943 29 100.0 36 ............................. CCTAATACACCTAAACTACTCTTATATATAAAAACA 527878 29 93.1 0 .......................C....C | A [527853] ========== ====== ====== ====== ============================= ====================================== ================== 11 29 99.4 36 GTTTTAACTACTTATTATGAAATGTAAAT # Left flank : CATTTAAAATTTGGTGGTGAAGGTATGTATGTAAATTTAATTTATGATATTTCAATAGAAAACGGTGGGGCAAAAGTCTGGAGAAATGTATTTAAGATTTGTAAAAAGTACTTAACTCATGTTCAAAAATCAGTTTTTGAAGGTGAAATAACTCCAGTGCTTTTAGTTAAGTTAAGGATGGAGTTAGATAAGTATATTCGAGATGATAAAGATTCAGTAATTGTTTTTTCTAGTAGACAACAAAGATGGCTAGAAAAAGAATTTTGGGGATTAACGTATGAAAAGACTTCTAATTTCTTTTGATGTTCTCGGTCTGTCGACCTTTAGTAGTGCGAAAAATAGTGGGGTTCGACAAATTTTGGGAAATCATTGGGGGAGAAAGAGTTTGAAGTTTTTAAGTGGAAATCTGAAGGGATAAGTTATGATTTTTACGTAATTTTTAAGAGGTCGACAAAAGTAGTGACCTGAGTTATGATGGGAGTAGGCGTAAAATAGAGCGG # Right flank : GTCTTCTTAAAATTTAAACCCAAAAAATAAAAAGGCCAGGACCCAAATCCAAGACTTTTCCTACACTCCTCTAAACCAACAAAACCGCAACCAACGCCACAACCGCCGGCAAGCCCTGCTTCACTAAAATCCCCTTTGAAGAAGTCGCCCCTCCAAACAGCGCCGCCACAACCACACAACTCAAAAAGAAAATCTGCACAGTTTCAGCAAACCCTGCACCTGCGAAAAACAATCCCCACACAAGTCCTGCCGCAAGAAAGCCATTATAAAGCCCTTGATTCGCAAATAGCGTCTGTACTTTCTTATTCGCAAGTAGTTCCTTCTCCACACCAAATGTCTTGGCTGCGAGTTTGGTATTGGCGAAAAACATTTCTAAAATCATTATATAAATATGCTCGATCATTACGATGAAGGTTAAAATAAATGCTAAAATGGCCATAAAAAATCCCTCTTTTCTACTTCGAAGTATAGCATAGCTTGTAAATTTTTCGTAAAAATAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : GTTTTAACTACTTATTATGAAATGTAAAT # 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:82.76%AT] # Reference repeat match prediction: R [matched GTTTTAACTACTTATTATGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [66.7-55.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], // Array 2 544033-543592 **** Predicted by CRISPRDetect 2.4 *** >NZ_NYFT01000003.1 Listeria monocytogenes strain CFSAN049295 CFSAN049295_contig_0000003, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================================================= ================== 544032 29 58.6 45 .......A.GT..T...GT.GG.CG.C.G AAAGGGGCGTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGAG 543958 29 100.0 48 ............................. TTTATTTCTCCTACGCTTTTCTTATTTCTGTAAATAAGTTTTAGTTAC 543881 29 69.0 35 T.A..NNNNNNN................. TTTGTTGAATCAACGGATATAGATTTTACAATTTC 543817 29 100.0 36 ............................. ACAATAATAGGATATTTTGGATTTGTCTGCGTTCCT 543752 29 96.6 103 ................A............ TTGGTTCCTTTGGAAAACAACAATAGAGTGTAGTATTGTTTTATTCAATCATTCAGAATTGGTAAATGCAGAAGCAGCAAAATAACCAAAAGTAATGACTTTC 543620 28 82.8 0 ......A..T....A-.......A..... | A [543604] ========== ====== ====== ====== ============================= ======================================================================================================= ================== 6 29 84.5 54 GTTTTAGTTACTTATTGTGAAATGTAAAT # Left flank : AAGACGAAATTATGAGTGTCATTGGTGATGTGAAAGGCAAAGTCGCAATCGTTGTCGATGATATTATCGATACCGGCGTCCGTGCCACCACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAATGGTTGGGGGAAGGGGAATTTGGCGGTATTTGCTTGGGGAAATCTTCAGGATAAGGGGAG # Right flank : GAAAACCTGTTATACATAGGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAACAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAAAACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTGAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATTAGCGAGATAGAAATTT # Questionable array : NO Score: 3.80 # Score Detail : 1:0, 2:3, 3:0, 4:0.23, 5:0, 6:0.25, 7:-1.37, 8:1, 9:0.69, # 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:76.19%AT] # Reference repeat match prediction: R [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [6-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,4.5 Confidence: HIGH] # Array family : II-A [Matched known repeat from this family], //