Array 1 166475-165059 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBC01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1560 BCW_8415_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 166474 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 166413 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 166352 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 166290 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 166229 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 166168 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 166107 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 166046 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 165985 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 165924 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 165863 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 165802 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 165741 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 165680 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 165619 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 165557 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 165454 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 165393 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165332 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 165271 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165210 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 165149 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 165088 29 96.6 0 A............................ | A [165061] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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], // Array 2 184588-182607 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXBC01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1560 BCW_8415_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 184587 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 184526 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 184465 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 184404 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 184343 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 184282 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 184221 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 184160 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 184099 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 184038 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 183977 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 183916 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 183855 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 183794 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 183733 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 183672 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 183611 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 183550 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 183489 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 183428 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 183367 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 183306 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 183245 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 183184 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 183122 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 183061 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 183000 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 182939 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 182878 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 182817 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 182756 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 182695 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 182634 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [10-0] 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], //