Array 1 163378-161901 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYY01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4426 BCW_8436_1__paired__contig_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163377 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163316 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163255 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163194 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163132 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163071 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 163010 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 162949 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162888 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162827 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 162766 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 162705 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162644 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162583 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162522 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162461 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162399 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162296 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162235 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162174 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162113 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162052 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161991 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161930 29 96.6 0 A............................ | A [161903] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 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 181491-179510 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYY01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4426 BCW_8436_1__paired__contig_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181490 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 181429 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 181368 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 181307 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 181246 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 181185 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 181124 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 181063 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 181002 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 180941 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 180880 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 180819 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180758 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180697 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 180636 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 180575 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180514 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180453 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180392 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180331 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180270 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180209 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180148 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 180087 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180025 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179964 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179903 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179842 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179781 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179720 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179659 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 179598 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179537 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], //