Array 1 98042-100022 **** Predicted by CRISPRDetect 2.4 *** >NZ_LYRT01000232.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST478 ST478-Typhimurium_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98042 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98103 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98164 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98225 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98286 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98347 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98408 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98469 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98530 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98591 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98652 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98713 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98774 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98835 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98896 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98957 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99018 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99079 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99140 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99201 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99262 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99323 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99384 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99445 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99507 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99568 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99629 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99690 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99751 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99812 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99873 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99934 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99995 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 116155-116959 **** Predicted by CRISPRDetect 2.4 *** >NZ_LYRT01000232.1 Salmonella enterica subsp. enterica serovar Typhimurium strain ST478 ST478-Typhimurium_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116155 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116216 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116277 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116338 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116399 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116461 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 116564 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116625 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116686 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116747 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 116808 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 116869 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 116930 29 96.6 0 A............................ | A [116956] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //