Array 1 107750-106298 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYM01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1911 BCW_8418_1__paired__contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107749 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107688 29 69.0 68 ....................NNNNNNNNN NNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC 107591 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107529 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107468 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107407 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107346 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107285 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107224 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107163 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107102 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107041 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106980 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106919 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106858 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106796 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106693 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106632 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106571 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106510 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106449 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106388 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106327 29 96.6 0 A............................ | A [106300] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 98.2 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.95 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.21, 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: F [3-10] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 125863-123882 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYM01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1911 BCW_8418_1__paired__contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125862 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125801 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125740 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125679 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125618 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125557 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125496 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125435 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125374 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125313 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125252 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 125191 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 125130 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 125069 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 125008 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124947 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124886 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124825 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124764 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124703 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124642 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124581 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124520 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124459 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124397 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124336 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124275 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124214 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124153 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124092 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124031 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123970 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123909 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], //