Array 1 107603-106126 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQV01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1252 BCW_8441_1__paired__contig_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107602 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107541 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107480 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 107419 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107357 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107296 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107235 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107174 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107113 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107052 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 106991 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 106930 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 106869 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 106808 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 106747 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106686 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106624 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106521 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106460 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106399 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106338 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106277 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106216 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106155 29 96.6 0 A............................ | A [106128] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 125716-123735 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQV01000010.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1252 BCW_8441_1__paired__contig_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125715 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 125654 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 125593 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 125532 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 125471 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 125410 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 125349 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 125288 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 125227 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 125166 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 125105 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 125044 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 124983 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 124922 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 124861 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 124800 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 124739 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 124678 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124617 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124556 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124495 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124434 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124373 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 124312 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124250 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124189 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124128 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124067 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124006 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 123945 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123884 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123823 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123762 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], //