Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913_3_vch_tpiA 1,544,022 1 bp→AA coding (39/1389 nt) narU ← nitrate/nitrite transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_vch_tpiA1,544,0211.A87.8% 143.0 / 14.6 49coding (40/1389 nt)narUnitrate/nitrite transporter
Reads supporting (aligned to +/- strand):  ref base . (4/2);  new base A (21/22);  total (25/24)
Fisher's exact test for biased strand distribution p-value = 6.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*NC_000913_3_vch_tpiA1,544,0220CA100.0% 157.5 / NA 49L13F (TTG→TTT) narUnitrate/nitrite transporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (25/24);  total (25/24)

ATTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑C‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTG  >  NC_000913_3_vch_tpiA/1543878‑1544155
                                                                                                                                                  |||                                                                                                                                    
aTTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑A‑aaaa                                                                                                                                   >  1:676431/1‑149 (MQ=255)
       ttACCGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAAc                                                                                                                             <  1:599670/149‑1 (MQ=255)
       ttAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAAc                                                                                                                             >  1:151956/1‑149 (MQ=255)
       ttAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAAc                                                                                                                             <  1:599692/149‑1 (MQ=255)
             gTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTAt                                                                                                                       >  1:907076/1‑149 (MQ=255)
               aaCTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGATATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTAttt                                                                                                                     <  1:62484/149‑1 (MQ=255)
               aaCTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTAttt                                                                                                                     <  1:60818/149‑1 (MQ=255)
                           tAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGTTTTCCAGTCGCAA‑A‑AAAAGATAACGACTATTTTTCTCATTTTGc                                                                                                         >  2:53259/1‑149 (MQ=255)
                              cATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGAAATAGGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGA‑GAA‑AAAAGATAACAACTATTTTTCTCATTTTGCAGt                                                                                                      >  2:331856/1‑149 (MQ=255)
                                tCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCATTGc                                                                                                    >  2:683728/1‑149 (MQ=255)
                                   aGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCat                                                                                                 >  1:685940/1‑149 (MQ=255)
                                       acaGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTg                                                                                             <  2:676431/149‑1 (MQ=255)
                                       acaGAAGGCAAGAAGTAGACAACTGACTGATATCAAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTTCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGGCTATTTTTCTCATTTTGCCGTGCCATATTg                                                                                             >  2:828194/1‑149 (MQ=255)
                                         aGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTGTTATGATTTTACAGTGCCATATTGtt                                                                                           >  1:679077/1‑149 (MQ=255)
                                           aaGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTc                                                                                          <  1:500207/148‑1 (MQ=255)
                                           aaGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTc                                                                                          >  2:500207/1‑148 (MQ=255)
                                               cAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTcac                                                                                     >  2:309444/1‑149 (MQ=255)
                                                aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTca                                                                                      <  1:187855/147‑1 (MQ=255)
                                                aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTca                                                                                      >  2:187855/1‑147 (MQ=255)
                                                 agaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACAt                                                                                   <  2:499323/149‑1 (MQ=255)
                                                 agaagGAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACAt                                                                                   <  2:766992/149‑1 (MQ=255)
                                                  gaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTtctc                                                                                                                <  1:556480/119‑1 (MQ=255)
                                                  gaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTtctc                                                                                                                >  2:556480/1‑119 (MQ=255)
                                                         aCAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGCCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACAt                                                                           <  1:223010/149‑1 (MQ=255)
                                                                actgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATCTTGTTCCTCACATGCACACATTGTTAAt                                                                    >  2:409503/1‑149 (MQ=255)
                                                                actgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAAt                                                                    <  2:673999/149‑1 (MQ=255)
                                                                  tgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGa                                                                  >  1:2939/1‑149 (MQ=255)
                                                                    atatCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑A‑aaaaa                                                                                                                                  >  1:791796/1‑81 (MQ=255)
                                                                    atatCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑A‑aaaaa                                                                                                                                  <  2:791796/82‑2 (MQ=255)
                                                                        ccAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGaaaaaaa                                                            <  2:907076/149‑1 (MQ=255)
                                                                         cAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTcc                                                                                         <  2:376202/119‑1 (MQ=255)
                                                                         cAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTcc                                                                                         >  1:376202/1‑119 (MQ=255)
                                                                          agagATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGcaca                                                                              <  2:527298/129‑1 (MQ=255)
                                                                          agagATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGcaca                                                                              >  1:527298/1‑129 (MQ=255)
                                                                          agagATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGa                                                          >  1:393126/1‑149 (MQ=255)
                                                                                ttcttcGAGCAATACGTTTTCCGTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAac                                                    <  1:266389/149‑1 (MQ=255)
                                                                                     cggtcAATATGTGTGCCTTGTTTTTCACAAAAGTCCGGATTTTCTTGTTGTCAGTCGC‑GAA‑AAAAAATAAAGACTGTATTTCTCATTTTGAAGAGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAg                                               <  2:902221/145‑1 (MQ=255)
                                                                                          aaTATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCACAACTCTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAg                                          >  1:558751/1‑149 (MQ=255)
                                                                                            tatGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGgc                                        >  1:561171/1‑149 (MQ=255)
                                                                                                  ttCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATa                                  <  1:28670/149‑1 (MQ=255)
                                                                                                       ttATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAg                             <  2:393126/149‑1 (MQ=255)
                                                                                                                 aGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAAt                   >  1:754561/1‑149 (MQ=255)
                                                                                                                 aGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAAt                   >  2:66028/1‑149 (MQ=255)
                                                                                                                    aGGCCCGATTCTCGTGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTCTCTCAGTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACTTCACATCCCCCAATGCGCAATAGCCAGTTATTAGAATTaa                <  1:253121/149‑1 (MQ=255)
                                                                                                                      gtcGGATTTTCTGGTGTTCAGTCGT‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGGCATATGGTGCCTAACATGCACAAAGTTGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAgg              <  2:420981/147‑1 (MQ=255)
                                                                                                                       ccGGATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGa             <  1:657307/149‑1 (MQ=255)
                                                                                                                          gATTTTCTGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGa          <  1:593457/149‑1 (MQ=255)
                                                                                                                                 tGGTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCGGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGCGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGt   >  2:95388/1‑149 (MQ=255)
                                                                                                                                  ggTTTCCAGTCGC‑GAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTg  >  1:187429/1‑149 (MQ=255)
                                                                                                                                                   aaaaaGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAAt                                   >  2:306583/2‑101 (MQ=255)
                                                                                                                                                   aaaaaGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAAt                                   <  1:306583/100‑1 (MQ=255)
                                                                                                                                                  |||                                                                                                                                    
ATTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑C‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTG  >  NC_000913_3_vch_tpiA/1543878‑1544155

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑