Array 1 107694-106217 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYG01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0260 BCW_8407_1__paired__contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107693 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107632 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107571 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107510 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107448 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107387 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107326 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107265 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107204 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107143 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107082 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107021 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106960 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106899 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106838 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106777 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106715 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106612 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106551 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106490 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106429 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106368 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106307 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106246 29 96.6 0 A............................ | A [106219] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 125807-123826 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYG01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0260 BCW_8407_1__paired__contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125806 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125745 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125684 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125623 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125562 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125501 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125440 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125379 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125318 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125257 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125196 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 125135 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125074 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125013 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124952 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124891 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124830 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124769 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124708 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124647 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124586 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124525 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124464 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124403 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124341 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124280 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124219 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124158 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124097 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124036 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123975 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123914 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123853 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], //