Array 1 107556-106082 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNN01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1028 BCW_8410_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================================== ================== 107555 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107494 29 69.0 90 ....................NNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC 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] ========== ====== ====== ====== ============================= ========================================================================================== ================== 23 29 98.2 37 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.85 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.31, 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 125669-123688 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZNN01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1028 BCW_8410_1__paired__contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125668 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125607 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125546 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125485 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125424 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125363 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125302 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125241 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125180 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125119 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125058 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 124997 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124936 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124875 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124814 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124753 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124692 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124631 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124570 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124509 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124448 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124387 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124326 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124265 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124203 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124142 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124081 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124020 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 123959 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 123898 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123837 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123776 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123715 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], //