Array 1 47890-48832 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIP01000018.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068044 CFSAN068044_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 47890 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 47951 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 48012 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 48073 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 48134 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 48195 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 48256 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 48317 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 48378 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 48439 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 48500 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 48561 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 48622 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 48683 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 48744 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 48805 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 1 10833-12675 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIP01000033.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068044 CFSAN068044_contig_33, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 10833 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 10894 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 10955 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 11016 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 11077 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 11138 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 11199 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 11261 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 11322 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 11383 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 11444 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 11505 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 11566 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 11627 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 11688 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 11749 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 11810 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 11871 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 11932 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 11994 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 12055 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [12097] 12097 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 12158 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 12219 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 12280 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 12341 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 12402 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 12463 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 12524 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 12585 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 12646 29 96.6 0 A............................ | A [12672] ========== ====== ====== ====== ============================= ================================= ================== 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], //