Array 1 276119-274642 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYF01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0148 BCW_8405_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 276118 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 276057 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 275996 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 275935 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 275873 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 275812 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 275751 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 275690 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 275629 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 275568 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 275507 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 275446 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 275385 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 275324 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 275263 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 275202 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 275140 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 275037 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 274976 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 274915 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 274854 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 274793 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 274732 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 274671 29 96.6 0 A............................ | A [274644] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 294232-292251 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYF01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0148 BCW_8405_1__paired__contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 294231 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 294170 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 294109 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 294048 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 293987 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 293926 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 293865 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 293804 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 293743 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 293682 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 293621 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 293560 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 293499 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 293438 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 293377 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 293316 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 293255 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 293194 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 293133 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 293072 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 293011 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 292950 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 292889 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 292828 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 292766 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 292705 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 292644 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 292583 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 292522 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 292461 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 292400 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 292339 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 292278 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], //