Array 1 13184-11341 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUJE01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033875 CFSAN033875_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 13183 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 13122 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 13061 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 13000 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 12939 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 12878 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 12816 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 12755 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 12694 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 12633 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 12572 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 12511 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 12450 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 12389 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 12328 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 12267 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 12206 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 12145 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 12084 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 12022 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 11919 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 11858 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 11797 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 11736 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 11675 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 11614 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 11553 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 11492 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 11431 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 11370 29 96.6 0 A............................ | A [11343] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 30809-29316 **** Predicted by CRISPRDetect 2.4 *** >NZ_LUJE01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033875 CFSAN033875_contig0000, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 30808 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 30747 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 30686 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 30625 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 30564 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 30503 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 30442 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 30381 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 30320 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 30259 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 30198 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 30137 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 30076 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 30015 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 29954 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 29893 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 29831 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 29770 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 29709 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 29648 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 29587 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 29526 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 29465 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 29404 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 29343 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], //