Array 1 97882-99862 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQR01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM2896::STM1252 BCW_7515_1__paired__contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97882 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97943 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98004 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98065 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98126 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98187 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98248 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98309 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98370 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98431 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98492 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98553 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98614 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98675 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98736 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98797 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98858 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98919 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98980 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99041 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99102 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99163 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99224 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99285 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99347 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99408 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99469 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99530 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99591 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99652 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99713 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99774 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99835 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 116194-117486 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQR01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM2896::STM1252 BCW_7515_1__paired__contig_17, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116194 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116256 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116317 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116378 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116439 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116500 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116561 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116622 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116683 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116744 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116805 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116866 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116927 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116989 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117092 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117153 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117214 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117275 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117336 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117397 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117458 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.2 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.13, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //