Array 1 9489-7325 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQG01000078.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SEN134 TYPHIMURIUM_S11_trimmed_contig_83, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 9488 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 9427 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 9366 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 9305 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 9244 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 9183 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 9122 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 9061 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 9000 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 8939 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 8878 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 8817 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 8756 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 8695 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8634 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8573 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8512 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8451 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8390 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8329 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8268 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8207 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8146 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 8085 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 8024 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7963 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7902 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7840 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7779 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7718 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7657 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7596 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7535 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7474 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7413 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7352 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [12-0] 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], // Array 1 31420-30615 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQG01000055.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SEN134 TYPHIMURIUM_S11_trimmed_contig_60, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 31419 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 31358 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 31297 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 31236 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 31175 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 31113 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 31010 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 30949 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 30888 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 30827 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 30766 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 30705 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 30644 29 96.6 0 A............................ | A [30617] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 [3-0] 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], //