Array 1 107437-106082 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYW01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3679 BCW_8432_1__paired__contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107436 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107375 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107313 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107252 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107191 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107130 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107069 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107008 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 106947 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 106886 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106825 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106764 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106703 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106642 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106580 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106477 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106416 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106355 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106294 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106233 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106172 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106111 29 96.6 0 A............................ | A [106084] ========== ====== ====== ====== ============================= ========================================================================== ================== 22 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCAC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.12, 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-5.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 125685-123704 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYW01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3679 BCW_8432_1__paired__contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125684 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125623 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125562 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125501 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125440 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125379 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125318 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125257 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125196 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125135 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125074 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 125013 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124952 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124891 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124830 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124769 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124708 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124647 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124586 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124525 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124464 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124403 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124342 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124281 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124219 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124158 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124097 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124036 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 123975 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 123914 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123853 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123792 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123731 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], //