Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,953,432 C→T 8.3% intergenic (+19/‑46) ilvE → / → ilvD branched‑chain amino acid aminotransferase/dihydroxyacid dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,953,4320CT 8.3% 145.6 / 3.1 48intergenic (+19/‑46)ilvE/ilvDbranched‑chain amino acid aminotransferase/dihydroxyacid dehydratase
Reads supporting (aligned to +/- strand):  ref base C (25/19);  new base T (2/2);  total (27/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01

CGTAGACGGTATTCAGGTTGGCGAAGGCCGTTGTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACGCCGATTTCGG  >  NC_000913/3953284‑3953575
                                                                                                                                                    |                                                                                                                                               
cGTAGACGGTATTCAGGTTGGCGAAGGCCGTTGTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGgc                                                                                                                                                 <  1:47036/149‑1 (MQ=255)
               ggTTGGCGAAGGCCGTTTTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGTGCGTGCCGTCCCAtt                                                                                                                                  <  3:229698/149‑1 (MQ=255)
                      gAAGGCCGTTGTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACgaga                                                                                                                           <  4:291119/149‑1 (MQ=255)
                          gCCGTTGTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGagacaga                                                                                                                       >  4:493407/1‑149 (MQ=255)
                               tgtgGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGACGTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGGTCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGACACAGACACTg                                                                                                                  <  4:600112/149‑1 (MQ=255)
                                    cccGGTTACCAAACGCATACAACAAGACTTCTTCGGCCTCTTAACTTGAGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGGTTCACAATACATACAATAAATGGAACAGCACGCACCGTCCCATTTACGAGACAGACACCGGGAGt                                                                                                             >  2:58084/1‑149 (MQ=255)
                                     ccGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGACACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAATAATGGGACGGCACCCACCGTCCCATTTACGAGACAGACACGGGGAgca                                                                                                            >  1:646800/1‑147 (MQ=255)
                                      cGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGtaa                                                                                                           >  4:407182/1‑149 (MQ=255)
                                      cGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGtaa                                                                                                           >  3:320688/1‑149 (MQ=255)
                                       ggTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGtaaa                                                                                                          <  4:614778/149‑1 (MQ=255)
                                              aaaCGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGTGCGTGCCGTCCCa                                                                                                                                    >  4:363706/1‑116 (MQ=255)
                                              aaaCGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGAGCAAGTTAATCAATAAATACAAAAAATGGGACGGTGCGTGCCGTCCCa                                                                                                                                    <  3:363706/116‑1 (MQ=255)
                                               aaCGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTAt                                                                                                  >  1:208488/1‑149 (MQ=255)
                                                aCGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATg                                                                                                 >  1:140335/1‑149 (MQ=255)
                                                         gCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTAc                                                                                        >  2:108089/1‑149 (MQ=255)
                                                            aGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGagacaga                                                                                                                       <  2:497540/115‑1 (MQ=255)
                                                            aGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGagacaga                                                                                                                       >  1:497540/1‑115 (MQ=255)
                                                              ccTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTgg                                                                                                                 <  1:213081/119‑1 (MQ=255)
                                                              ccTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTgg                                                                                                                 >  2:213081/1‑119 (MQ=255)
                                                                 tcttcGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGc                                                                                <  1:108089/149‑1 (MQ=255)
                                                                       gCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGTGCGTGCCGTcc                                                                                                                                      >  4:528179/1‑89 (MQ=39)
                                                                       gCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTcc                                                                                  <  1:153659/141‑1 (MQ=255)
                                                                       gCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTcc                                                                                  >  2:153659/1‑141 (MQ=255)
                                                                          tctTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTAc                                                                                        >  4:226257/1‑132 (MQ=255)
                                                                          tctTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTAc                                                                                        <  3:226257/132‑1 (MQ=255)
                                                                                cTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATgg                                                                 <  3:564544/149‑1 (MQ=255)
                                                                                 tGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAg                                                                                           <  4:463776/122‑1 (MQ=255)
                                                                                 tGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAg                                                                                           >  3:463776/1‑122 (MQ=255)
                                                                                  ggCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTc                                                               <  3:493407/149‑1 (MQ=255)
                                                                                           gAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGGCGTAATATgg                                                      >  2:181543/1‑149 (MQ=255)
                                                                                                    tGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTc                                             <  3:407182/149‑1 (MQ=255)
                                                                                                     ggggCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCg                                            >  1:528324/1‑149 (MQ=255)
                                                                                                        gCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTc                                                               <  1:377372/127‑1 (MQ=255)
                                                                                                        gCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTc                                                               >  2:377372/1‑127 (MQ=255)
                                                                                                            gTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCATAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCtg                                     >  4:593844/1‑149 (MQ=255)
                                                                                                             ttAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCATCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCtgt                                    <  4:115890/149‑1 (MQ=255)
                                                                                                                 aTCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGT‑CCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGgcgc                               >  2:483323/1‑149 (MQ=255)
                                                                                                                       ttAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTACGCCACCACCACTCATGGTCGTAATATGGCGGGTTCTCGAGCGCTGTGGCGCGCCAc                          >  4:674706/1‑149 (MQ=255)
                                                                                                                           tCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGa                      >  2:614775/1‑149 (MQ=255)
                                                                                                                                   taCAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATg                                                                  >  2:101041/1‑97 (MQ=255)
                                                                                                                                   taCAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATg                                                                  <  1:101041/97‑1 (MQ=255)
                                                                                                                                    aCAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATg                                                                  <  2:138611/96‑1 (MQ=255)
                                                                                                                                    aCAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATg                                                                  >  1:138611/1‑96 (MQ=255)
                                                                                                                                      aaaaaaTGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTAt                                                                                                  >  1:338644/1‑62 (MQ=255)
                                                                                                                                      aaaaaaTGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTAt                                                                                                  <  2:338644/62‑1 (MQ=255)
                                                                                                                                          aaTGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTCCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACGCCGAt       <  4:320688/149‑1 (MQ=255)
                                                                                                                                             gggACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACCCCGATTTc    >  3:56320/1‑149 (MQ=255)
                                                                                                                                              ggACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACGCCGATTTCg   <  2:528324/149‑1 (MQ=255)
                                                                                                                                               gACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACGCCGATTTCgg  >  4:460129/1‑149 (MQ=255)
                                                                                                                                                    |                                                                                                                                               
CGTAGACGGTATTCAGGTTGGCGAAGGCCGTTGTGGCCCGGTTACCAAACGCATTCAGCAAGCCTTCTTCGGCCTCTTCACTGGCGAAACCGAAGATAAATGGGGCTGGTTAGATCAAGTTAATCAATAAATACAAAAAATGGGACGGCACGCACCGTCCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATGCCTAAGTACCGTTCCGCCACCACCACTCATGGTCGTAATATGGCGGGTGCTCGTGCGCTGTGGCGCGCCACCGGAATGACCGACGCCGATTTCGG  >  NC_000913/3953284‑3953575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑