Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A4 F9 I0 R1 165 96.4 2178490 87.4% 1904000 226.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 811,721 T→G 46.8% V67G (GTG→GGG)  bioC → malonyl‑ACP O‑methyltransferase, SAM‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913811,7210TG46.8% 15.2 / 24.0 23V67G (GTG→GGG) bioCmalonyl‑ACP O‑methyltransferase, SAM‑dependent
Reads supporting (aligned to +/- strand):  ref base T (6/5);  new base G (10/2);  total (16/7)
Fisher's exact test for biased strand distribution p-value = 1.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-03

ATGCAGGATATCGACCGTCTGCTGGAGGTGCTGCATGGCAACGGTTAATAAACAAGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGAGCTGTATCGGGTGGTGCGCCCCAAAGGCGTGGTCGCGTTTACCACGCTGGTGCAGGGATCGT  >  NC_000913/811488‑811957
                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                               
aTGCAGGATATCGACCGTCTGCTGGAGGTGCTGCATGGCAACGGTTAATAAACAAGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGCGGGGAACG‑CACGCGCACGGGACg                                                                                                                                                                                                                                             >  1:1080867/1‑238 (MQ=255)
                           gTGCTGCATGGCAACGGTTAATAAACAAGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGGGACGGCCCTAGATCTCTCGCCGCCCATGCTTg                                                                                                                                                                                                                 >  1:413104/1‑239 (MQ=255)
                                           gTTAATAAACAAGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGGCCCGCCCCGGGGACGGCCCTAGATCTCCCGCCGCCCAGGCGTGTTCAGGCACCCCCGaa                                                                                                                                                                                                 >  2:756714/1‑239 (MQ=255)
                                            ttAAAAAACCACCCATGGCGGGGGCTTTTGGGCGGGCCACCGCACCCTAGGAGCACCTTGAAGTGTTATAGCCCCAGGGGGCT‑CGGCCTTTCCGTACAATGCTTCCACAGCATAAATACCCCCACTTACGGGGGGCGGGTTGGGGACCTGGTTGTATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGTCAGaa                                                                                                                                                                                                 <  2:363507/238‑1 (MQ=255)
                                                     atgCCATTGCCGGGGTGTTTGGGCGGGCGAGCGCACACTGTGAACAACAGGCAAATCTACGGCGCCAGGGTTCGGACGCCTTGCGG‑GAAATGCTTCCACGGGTTAAATACCCCCCGGTCTGGGACGGGGGTTGTGGCCCGGGCTGGATGGGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCa                                                                                                                                                                                       <  2:125356/237‑1 (MQ=255)
                                                     aaGCCTTTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATCCACCCACGTACTGGACGCGGGTTGTGGCCCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCa                                                                                                                                                                                       <  1:212095/239‑1 (MQ=255)
                                                      aGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGGACGGCGCCCGCACGGGAGAGCCCTCGATCCCTCCCCGCCCCACCGTTTTCAGGCCCCCCAGAAGGAAGCCGcg                                                                                                                                                                                       >  2:849569/1‑237 (MQ=255)
                                                      aGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGCCACACCCAGGGGACGGCCTTAGATTTCTCGCCGCCACAGCTTGTTTAGGCCACCCAGCAGGATGccccgg                                                                                                                                                                                      >  1:1072977/1‑235 (MQ=255)
                                                                                             tGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGGACGTCCCGCGCAAGGGGCGGCCGTAGATCTCCCGCCCCCCAAGCTTTGTCAGGCCCGACCGAAGGAAGGCCCCGCACATTATCAGGCGGGGGAAATCCGAACCCCG‑CCGCTac                                                                                                                                              >  2:660908/1‑238 (MQ=255)
                                                                                                   aCATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCCGGTGACGGCCTTAGATCTCTCGCCGCCCATGCTTGTTCAGGCACGCCCGAAGGCAGCCGCAGACCCTTATCTTGCGGGCGATATCGAAACCCTG‑CCCTTAGCGAca                                                                                                                                         >  1:739444/1‑237 (MQ=255)
                                                                                                   aCATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCCGAAAGATGCCGCAGACCCTTTTCCTGCGGGGGATATCGGATCCCTC‑CCGTTAGCGACTg                                                                                                                                        >  1:328008/1‑239 (MQ=255)
                                                                                                               aCAGCCCCGGAGTTCTGACCCCTTACTG‑ACAAGGCTCCCACAGCGTAAATACCCCCACGTACTGGCCGCGGGTTGTGGACCTGGCGGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATc                                                                                                                           <  1:600848/239‑1 (MQ=255)
                                                                                                                     ccAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTTCGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTC‑CCGTTAGCGGCTGCG‑ACGGTCGCTCttt                                                                                                                        >  1:977581/1‑235 (MQ=255)
                                                                                                                                aCGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGGGACGGCCTTAGATCTCTCGCCGCCAATGCTTGGTCAGGCACCCCCGAAGGATGCCGCAGACCATTATCTTGCGGGGGATATCGAATCCCTG‑CCGGTTGGGGCTGCG‑ACGTTTGATCTTGCCTGGGGCaaatt                                                                                                           >  1:755786/1‑235 (MQ=255)
                                                                                                                                                             tAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCAGACCCTTATCTTGCGGGAGATATCGAATCCCTG‑CCGCTAGCGACTGCG‑ACGTTCGATCTTTCATGGGGCAAACTCGCAGTGCAGTGGGGCGGG‑AAATTTTcc                                                                              >  1:337287/1‑238 (MQ=255)
                                                                                                                                                             tAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGCCACGCGCAGGGGACGGCCTTTGATCTCTCGCCCCCCATGCTTGTTTCGGCCCCCCAGAAGGATGCCCCAGACCCTTTTCTGCCGGGGGCAATCGGACCCCCC‑CCGTTAGCGCCGGCG‑CCGCTCCTTCTTGCGTGGGGCAAACTCCCCCGGCAGGGGGGGGGG‑AATTTAttc                                                                              >  2:746089/1‑236 (MQ=255)
                                                                                                                                                                     cccACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGGTCAGGCACGCCCGAAGGATGCCGCAGACCCTTATCTGGCGGGGGGTATCGAATCCCTG‑CCGTTa                                                                                                                                               >  1:61429/1‑167 (MQ=255)
                                                                                                                                                                          gTAGTGGGCGGGGGTTGGGGCCTGGGCTGGATGGCCCGCCACGGGC‑GGAAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTGGTTCAGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGa                                                                <  1:849569/239‑1 (MQ=255)
                                                                                                                                                                           gccggggggggggTTGGGGCCGTGGTGGGATGGGCCGCCCCGGGC‑GGGAACGTCCGGCGAAGGGGACGGCCTTAGATCTCCCGCCGCAAATGCTTGTTCAGGCCCGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGAg                                                               <  1:642578/229‑1 (MQ=255)
                                                                                                                                                                                          gtgGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGGAGGGGACGGCCCTAGATCTCTCGCCGCCAATGCTTTGTCCGGGACGCCACAAGGAATCCGCAGACCATTTTCTGGCGGGGGGAATCGAACCCCCGCCCGTTGGCG‑CTCCGCACGTCCG‑TCTTTGCTGGGGCAATATCCCAGGGCAGGGGGGGGGG‑GAATTTTCCACCGCCCCCCCCGAGCTGGGTCgggggggg                                                >  2:939461/1‑237 (MQ=255)
                                                                                                                                                                                                             ccgccACTGGC‑GGGAACGTCACGCGCAGGGGACGGCCTTAGATCTCTCGCCGCCCATGCTTGTTCAGGCACGCCCGAAGGATGGCGCAGACCCTTATCTGGCGGGGGATATTCGATCCCCT‑CCGGTTGCGGCCGCG‑ACGTTCGGTCTTTCCTTGGGCAATCTCCCCGGGCCGGGGGGCGGTGAATTTTCCCAC‑GCACCCCCCGAGCCGTAGCGGGGGGGGGGGCCCaaaagggggggcg                             >  2:261796/1‑229 (MQ=255)
                                                                                                                                                                                                                 cACGGGC‑GGGAACGTCGGCGGCGGGGCGCGGCCTGAGATCTTCCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGGGTCCGCAGCCCATTATCGGGCGGGAGATATCGAATCCATG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGAGCTGTATCGGGTGGTGCGCCCCAAAGGCGTGGTCGCGtt                         <  2:1072977/239‑1 (MQ=255)
                                                                                                                                                                                                                                         ggTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGAGCTGTATCGGGGGGGGGGCCCCAAAGGGGTGGTCGCGTTTACCACCCTGGGGCgggggtggt  >  2:577932/1‑234 (MQ=255)
                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                               
ATGCAGGATATCGACCGTCTGCTGGAGGTGCTGCATGGCAACGGTTAATAAACAAGCCATTGCAGCGGCATTTGGTCGGGCAGCCGCACACTATGAGCAACATGCAGATCTACAGCGCCAGAGTGCTGACGCCTTACTG‑GCAATGCTTCCACAGCGTAAATACACCCACGTACTGGACGCGGGTTGTGGACCTGGCTGGATGAGCCGCCACTGGC‑GGGAACGTCACGCGCAGGTGACGGCCTTAGATCTCTCGCCGCCAATGCTTGTTCAGGCACGCCAGAAGGATGCCGCAGACCATTATCTGGCGGGAGATATCGAATCCCTG‑CCGTTAGCGACTGCG‑ACGTTCGATCTTGCATGGAGCAATCTCGCAGTGCAGTGGTGCGGT‑AATTTATCCACGGCACTCCGCGAGCTGTATCGGGTGGTGCGCCCCAAAGGCGTGGTCGCGTTTACCACGCTGGTGCAGGGATCGT  >  NC_000913/811488‑811957

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A