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
A6 F28 I1 R1 132 61.4 2079690 99.1% 2060972 139.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,059,533 A→G H93R (CAC→CGC)  torA → trimethylamine N‑oxide reductase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,059,5330AG100.0% 135.5 / NA 38H93R (CAC→CGC) torAtrimethylamine N‑oxide reductase 1
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (22/16);  total (22/16)

ATCTCGAAAGAGGGCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCACGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGCCCTCGACATGTT  >  NC_000913/1059397‑1059668
                                                                                                                                        |                                                                                                                                       
aTCTCGAAAGAGGGCATTCTTACCGGGTCGCACTGGGGGGTTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGt                                                                                                                                      >  1:377803/1‑140 (MQ=255)
aTCTCGAAAGAGGGCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATcgcgg                                                                                                                                      >  2:865308/1‑139 (MQ=255)
        agagGGCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAAcg                                                                                                                              >  2:146714/1‑140 (MQ=255)
          agGGCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAAcgcg                                                                                                                            >  2:693280/1‑140 (MQ=255)
            ggCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGCTAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGCACACAACgcggc                                                                                                                          >  2:408252/1‑140 (MQ=255)
            ggCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACgcggc                                                                                                                          >  1:505230/1‑140 (MQ=255)
               aTTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGcgcg                                                                                                                       <  1:146714/140‑1 (MQ=255)
                           tCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATcc                                                                                                           >  2:674140/1‑140 (MQ=255)
                           tCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATcc                                                                                                           >  2:155078/1‑140 (MQ=255)
                            cGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCg                                                                                                          >  1:610634/1‑140 (MQ=255)
                             gCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATTATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGa                                                                                                         >  2:1002818/1‑140 (MQ=255)
                             gCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGa                                                                                                         <  2:774004/140‑1 (MQ=255)
                                cTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATgg                                                                                                      <  1:84022/140‑1 (MQ=255)
                                   gggggCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTAc                                                                                                   >  2:68847/1‑140 (MQ=255)
                                        cTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTg                                                                                              >  1:229919/1‑140 (MQ=255)
                                              gcgcgACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTgg                                                                                        <  1:161749/140‑1 (MQ=255)
                                                   aCGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCg                                                                                   <  2:288818/140‑1 (MQ=255)
                                                     ggTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTa                                                                                 >  2:742352/1‑140 (MQ=255)
                                                              tGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCAtc                                                                        >  2:171868/1‑140 (MQ=255)
                                                               ggTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCAtct                                                                       >  1:351007/1‑140 (MQ=255)
                                                                gTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCAtctc                                                                      >  1:523408/1‑140 (MQ=255)
                                                                   gCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGc                                                                   >  2:552883/1‑140 (MQ=255)
                                                                    cTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCg                                                                  <  1:68847/140‑1 (MQ=255)
                                                                      ttGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGAt                                                                >  2:165463/1‑140 (MQ=255)
                                                                                  aaCCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAgcgc                                                    <  1:778379/140‑1 (MQ=255)
                                                                                     cGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGt                                                 <  2:377803/140‑1 (MQ=255)
                                                                                     cGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGt                                                 <  1:674140/140‑1 (MQ=255)
                                                                                       ttCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGa                                               <  2:610634/140‑1 (MQ=255)
                                                                                         cGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATa                                             <  1:693280/140‑1 (MQ=255)
                                                                                               ggATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGtt                                       >  1:133019/1‑140 (MQ=255)
                                                                                                       atCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTgcgc                               <  2:523408/140‑1 (MQ=255)
                                                                                                        tCCGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGcgcg                              <  1:171868/140‑1 (MQ=255)
                                                                                                          cGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTg                            >  2:121943/1‑140 (MQ=255)
                                                                                                          cGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTg                            >  1:544006/1‑140 (MQ=255)
                                                                                                          cGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTg                            >  2:600175/1‑140 (MQ=255)
                                                                                                          cGTCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGAGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTg                            >  2:880114/1‑140 (MQ=255)
                                                                                                            tCGAAAATGATTGCCGGATTGCCGGATCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAg                          >  2:737628/1‑140 (MQ=255)
                                                                                                                      ttgccggattgccggaTCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGaa                >  1:89728/1‑140 (MQ=255)
                                                                                                                          cggattgccggatCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATGCCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGccc            <  2:65953/140‑1 (MQ=255)
                                                                                                                               tgccggatCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGCCCTCGAc       <  1:633124/140‑1 (MQ=255)
                                                                                                                                 ccggatCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGCCCTCGACAt     <  2:545654/140‑1 (MQ=255)
                                                                                                                                    gatCGCGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGCCCTCGACATGtt  <  1:188064/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                       
ATCTCGAAAGAGGGCATTCTTACCGGGTCGCACTGGGGGGCTATCCGCGCGACGGTGAAGGATGGTCGCTTTGTGGCGGCAAAACCGTTCGAACTGGATAAATATCCGTCGAAAATGATTGCCGGATTGCCGGATCACGTACACAACGCGGCGCGTATTCGTTATCCGATGGTACGCGTGGACTGGCTGCGTAAGCGCCATCTCAGCGATACCTCCCAGCGCGGTGATAACCGTTTTGTGCGCGTGAGCTGGGATGAAGCCCTCGACATGTT  >  NC_000913/1059397‑1059668

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A