Array 1 108012-106169 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJA01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068033 CFSAN068033_contig_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 108011 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 107950 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107889 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107828 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107767 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 107706 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 107645 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107583 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107522 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107461 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107400 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107339 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107278 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107217 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107156 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107095 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107034 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106973 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106912 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106850 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106747 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106686 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106625 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106564 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106503 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106442 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106381 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106320 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106259 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106198 29 96.6 0 A............................ | A [106171] ========== ====== ====== ====== ============================= ========================================================================== ================== 30 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.08, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 125086-124143 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHJA01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068033 CFSAN068033_contig_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 125085 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125024 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124963 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124902 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 124841 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 124780 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124719 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124658 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124597 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124536 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124475 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124414 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124353 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124292 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124231 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124170 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //