Array 1 163365-161949 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYR01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3051 BCW_8426_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163364 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163303 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163242 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163180 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163119 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163058 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162997 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162936 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162875 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162814 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162753 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162692 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162631 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162570 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162509 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162447 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162344 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162283 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162222 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162161 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162100 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162039 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161978 29 96.6 0 A............................ | A [161951] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 181478-179497 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYR01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3051 BCW_8426_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181477 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 181416 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 181355 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 181294 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 181233 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 181172 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 181111 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 181050 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 180989 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 180928 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 180867 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 180806 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180745 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180684 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 180623 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 180562 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180501 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180440 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180379 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180318 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180257 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180196 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180135 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 180074 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180012 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179951 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179890 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179829 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179768 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179707 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179646 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 179585 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179524 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], //