Array 1 97891-99871 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQT01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4298::STM1252 BCW_7517_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97891 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97952 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98013 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98074 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98135 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98196 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98257 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98318 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98379 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98440 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98501 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98562 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98623 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98684 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98745 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98806 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98867 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98928 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98989 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99050 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99111 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99172 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99233 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99294 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99356 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99417 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99478 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99539 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99600 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99661 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99722 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99783 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99844 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 116004-117480 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQT01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4298::STM1252 BCW_7517_1__paired__contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116004 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116065 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116126 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116187 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116249 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116310 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116371 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116432 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116493 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116554 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116615 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116676 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116737 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116798 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116859 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116920 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116982 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 117043 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117085] 117085 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117146 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117207 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117268 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117329 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117390 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117451 29 96.6 0 A............................ | A [117477] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //