Array 1 317050-317992 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIR01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068042 CFSAN068042_contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 317050 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 317111 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317172 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 317233 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 317294 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 317355 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 317416 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 317477 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 317538 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 317599 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317660 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 317721 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 317782 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 317843 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 317904 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 317965 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [0-6] 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 334124-335966 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIR01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068042 CFSAN068042_contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 334124 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 334185 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 334246 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 334307 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 334368 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 334429 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 334490 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 334552 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 334613 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 334674 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 334735 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 334796 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 334857 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 334918 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 334979 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 335040 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 335101 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 335162 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 335223 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 335285 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 335346 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [335388] 335388 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335449 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335510 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335571 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335632 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335693 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335754 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335815 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 335876 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 335937 29 96.6 0 A............................ | A [335963] ========== ====== ====== ====== ============================= ================================= ================== 31 29 98.4 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.04, 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 [1-13] 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], //