Array 1 108118-106275 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUIQ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033904 CFSAN033904_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 108117 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 108056 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107995 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107934 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107873 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 107812 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 107751 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107689 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107628 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107567 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107506 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107445 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107384 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107323 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107262 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107201 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107140 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107079 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107018 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106956 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106853 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106792 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106731 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106670 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106609 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106548 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106487 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106426 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106365 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106304 29 96.6 0 A............................ | A [106277] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 125192-124249 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUIQ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033904 CFSAN033904_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 125191 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 125130 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125069 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125008 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 124947 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 124886 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124825 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124764 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124703 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124642 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124581 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124520 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124459 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124398 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124337 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124276 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], //