Array 1 97990-99970 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNM01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1963 BCW_8419_1__paired__contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97990 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98051 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98112 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98173 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98234 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98295 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98356 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98417 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98478 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98539 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98600 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98661 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98722 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98783 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98844 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98905 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98966 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99027 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99088 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99149 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99210 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99271 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99332 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99393 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99455 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99516 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99577 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99638 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99699 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99760 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99821 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99882 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99943 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 116103-117579 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNM01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1963 BCW_8419_1__paired__contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116103 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116164 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116225 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116286 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116348 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116409 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116470 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116531 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116592 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116653 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116714 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116775 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116836 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116897 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116958 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 117019 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 117081 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 117142 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117184] 117184 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117245 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117306 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117367 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117428 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117489 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117550 29 96.6 0 A............................ | A [117576] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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 [0-13] 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], //