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
A11 F212 I1 R1 174 80.0 3892211 96.7% 3763768 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,658,592 C→T A175V (GCC→GTC)  ynfE → putative selenate reductase, periplasmic

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,658,5920CT95.9% 230.1 / ‑0.7 73A175V (GCC→GTC) ynfEputative selenate reductase, periplasmic
Reads supporting (aligned to +/- strand):  ref base C (2/1);  new base T (37/33);  total (39/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01

AAGAAAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGCCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGCCCTACA  >  NC_000913/1658498‑1658687
                                                                                              |                                                                                               
aagaaAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTcgg                                                                                            <  2:86400/100‑1 (MQ=255)
 agaaAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTcggc                                                                                           <  2:501551/100‑1 (MQ=255)
 agaaAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGCCTcggc                                                                                           <  2:444765/100‑1 (MQ=255)
  gaaAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTcggcg                                                                                          <  2:138937/100‑1 (MQ=255)
       ccGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCaa                                                                                     >  2:883526/1‑100 (MQ=255)
        cGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCaaa                                                                                    >  1:909977/1‑100 (MQ=255)
          tCGAACAATGTGGCAATGAGGCTGTATAAATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGTCATCAGTCTCGGCGGTCAAACg                                                                                  <  1:1129458/100‑1 (MQ=255)
          tCGAACAATATGTGAATGAGGCTGTATAAATTCATTACTCTTCGGGTGTCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACg                                                                                  <  1:399607/100‑1 (MQ=255)
            gAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGcc                                                                                >  1:464486/1‑100 (MQ=255)
            gAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGcc                                                                                <  2:1571009/100‑1 (MQ=255)
             aaCAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCt                                                                               >  2:1774268/1‑100 (MQ=255)
              aCAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGcc                                                                                <  1:324920/98‑1 (MQ=255)
               cAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGcc                                                                                >  1:903629/1‑97 (MQ=255)
                aaTATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCt                                                                               <  1:1928012/97‑1 (MQ=255)
                 atatGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCtgatg                                                                           >  1:232430/1‑100 (MQ=255)
                 atatGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCtgatg                                                                           <  2:1367108/100‑1 (MQ=255)
                     ggCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACt                                                                       >  2:788921/1‑100 (MQ=255)
                      ggaaTGAGGCTGTATATATTCAGTCCTCTTCGGGGAGCGGTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCtgatg                                                                           <  1:1296298/93‑1 (MQ=255)
                       cAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGc                                                                     >  1:826770/1‑100 (MQ=255)
                       cAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGc                                                                     >  1:201948/1‑100 (MQ=255)
                       cAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGc                                                                     >  2:1810649/1‑100 (MQ=255)
                       cAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGc                                                                     <  1:987457/100‑1 (MQ=255)
                        aaTGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCt                                                                    >  1:1671028/1‑100 (MQ=255)
                         aTGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTa                                                                   >  1:791897/1‑100 (MQ=255)
                         aTGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTa                                                                   >  1:467783/1‑100 (MQ=255)
                          tGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTAc                                                                  >  2:567714/1‑100 (MQ=255)
                            aGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTAcgg                                                                >  2:1494932/1‑100 (MQ=255)
                             ggCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTAcggc                                                               <  2:73048/100‑1 (MQ=255)
                                tGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGt                                                            <  2:1433458/100‑1 (MQ=255)
                                   atatatTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCa                                                         >  1:147542/1‑100 (MQ=255)
                                    tatatTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCAc                                                        <  2:1906339/100‑1 (MQ=255)
                                     atatTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACt                                                       >  1:102600/1‑100 (MQ=255)
                                      tctcttccgatctTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTc                                                      <  1:1208792/90‑1 (MQ=255)
                                       atTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACt                                                       >  1:770361/1‑98 (MQ=255)
                                       atTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCa                                                     >  1:568501/1‑100 (MQ=255)
                                         tCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAAc                                                   >  2:713869/1‑100 (MQ=255)
                                           aGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCa                                                 >  2:30023/1‑100 (MQ=255)
                                            gTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAg                                                >  2:1532970/1‑100 (MQ=255)
                                            gTACGCTTCCTGGATCGTTGGGGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAAcc                                                  <  1:211390/98‑1 (MQ=255)
                                               ctctTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTAt                                             >  2:1840412/1‑100 (MQ=255)
                                                 ctTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATgg                                           >  2:440005/1‑100 (MQ=255)
                                                 ctTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATgg                                           <  2:1225228/100‑1 (MQ=255)
                                                 ctTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATgg                                           >  1:1856462/1‑100 (MQ=255)
                                                     ggggATCGTTGGCGGCAATATGCCCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTcc                                       <  1:1707311/100‑1 (MQ=255)
                                                     ggggATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTcc                                       <  1:283142/100‑1 (MQ=255)
                                                     ggggATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTcc                                       >  2:1504841/1‑100 (MQ=255)
                                                     ggggATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACCCAACCAGTATGGCTcc                                       <  2:791899/100‑1 (MQ=255)
                                                        gATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTAc                                    >  2:507430/1‑100 (MQ=255)
                                                           cggtGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTa                                     <  1:720410/93‑1 (MQ=255)
                                                           cGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGc                                 <  2:139296/100‑1 (MQ=255)
                                                            gTTGGCGGCAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCa                                >  2:103240/1‑100 (MQ=255)
                                                               ggcggcAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTg                             <  2:909978/100‑1 (MQ=255)
                                                                 cggcAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTgcg                           >  1:212592/1‑100 (MQ=255)
                                                                 cggcAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTgcg                           >  2:54818/1‑100 (MQ=255)
                                                                  ggcAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTgcgc                          <  2:1519249/100‑1 (MQ=255)
                                                                    cAATATGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCaa                        >  1:1385610/1‑100 (MQ=255)
                                                                       tatGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAAtt                     >  2:1058200/1‑100 (MQ=255)
                                                                       tatGACCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTAAAGCACTGCGCAACtt                     >  1:1672586/1‑100 (MQ=255)
                                                                           aCCCGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCt                 <  1:1021175/100‑1 (MQ=255)
                                                                            cccGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCtg                <  1:500951/100‑1 (MQ=255)
                                                                            cccGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCtg                >  2:200475/1‑100 (MQ=255)
                                                                              cGCTCTTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCtgtg              <  2:464488/100‑1 (MQ=255)
                                                                              cGCTCTTCGCCATCAGCCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTGACTCAACCAGTATGGCCCCTACAGCACTGCGCAAATTTCCtgt               >  1:1031055/1‑99 (MQ=255)
                                                                               gCTCTTCTCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGc             <  1:295266/100‑1 (MQ=255)
                                                                                  ctTCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCAt          >  2:439511/1‑100 (MQ=255)
                                                                                    tCGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGc        <  1:1504833/100‑1 (MQ=255)
                                                                                     cGCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGcc       <  2:201949/100‑1 (MQ=255)
                                                                                      gCCATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGccc      <  1:1415621/100‑1 (MQ=255)
                                                                                      gCCATCAGCCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGccc      >  2:1009626/1‑100 (MQ=255)
                                                                                       ccATCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGCCCt     >  1:1910329/1‑100 (MQ=255)
                                                                                          tCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGCCCTaca  <  2:903630/100‑1 (MQ=255)
                                                                                          tCAGTCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGCCCTac   >  1:1208077/1‑99 (MQ=255)
                                                                                           cAGTCTCGGCGGACAAACGCCTGAAGAACTGCTACGGCGGTTCACGCAACCAGGATGGCTCCGACAGCACGTCGCAAATTTCCTGGGCCACGCCCt     <  1:523915/96‑1 (MQ=255)
                                                                                              |                                                                                               
AAGAAAACCGTCGAACAATATGGCAATGAGGCTGTATATATTCAGTACTCTTCGGGGATCGTTGGCGGCAATATGACCCGCTCTTCGCCATCAGCCTCGGCGGTCAAACGCCTGATGAACTGCTACGGCGGTTCACTCAACCAGTATGGCTCCTACAGCACTGCGCAAATTTCCTGTGCCATGCCCTACA  >  NC_000913/1658498‑1658687

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A