Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,852,356 T→A L74Q (CTG→CAG)  hypD → hydrogenase maturation protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,852,3560TA98.6% 243.3 / ‑6.0 70L74Q (CTG→CAG) hypDhydrogenase maturation protein
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base A (38/31);  total (39/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

TGGCGGTCATACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACTGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGAAAC  >  NC_000913/2852258‑2852451
                                                                                                  |                                                                                               
tgGCGGTCATACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACTg                                                                                                >  2:882846/1‑100 (MQ=255)
 ggCGGTCATACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCTGGGTGCCCGGTGTGCGTACAGc                                                                                               <  2:912678/100‑1 (MQ=255)
  gCGGTCATACCCACGCTATCTTTAAATTCGGCCTCGTCCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGcc                                                                                              <  1:1495976/100‑1 (MQ=255)
       cATACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATgg                                                                                         >  2:1181189/1‑100 (MQ=255)
         tACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATggg                                                                                        <  2:712437/99‑1 (MQ=255)
         tACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGt                                                                                       >  1:264871/1‑100 (MQ=255)
          aCCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTa                                                                                      >  1:309840/1‑100 (MQ=255)
          aCCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTa                                                                                      >  2:37561/1‑100 (MQ=255)
              aCGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAAt                                                                                  <  2:892183/100‑1 (MQ=255)
               cGCTATCTTTAAATTCGGCCTCGATCAGTTACTGCAGAAAAACGTTGAGTTTATCCACGGGACGGGCTGCCCGGTGTGCGTACAGCCGATGGGTAGAATc                                                                                 <  2:586989/100‑1 (MQ=255)
               cGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATc                                                                                 >  1:1478974/1‑100 (MQ=255)
               cGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATc                                                                                 >  2:1285618/1‑100 (MQ=255)
               cGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATc                                                                                 <  1:243251/100‑1 (MQ=255)
                  tATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGac                                                                              <  1:1326556/100‑1 (MQ=255)
                    tCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGacac                                                                            >  1:1163018/1‑100 (MQ=255)
                      tttAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCt                                                                          >  1:583458/1‑100 (MQ=255)
                          aaTTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGt                                                                      >  2:1131296/1‑100 (MQ=255)
                          aaTTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGt                                                                      >  1:594075/1‑100 (MQ=255)
                           aTTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTg                                                                     <  1:349999/100‑1 (MQ=255)
                              cGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGgag                                                                  <  2:340656/100‑1 (MQ=255)
                              cGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGgag                                                                  <  1:1956/100‑1 (MQ=255)
                                gCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGAt                                                                >  1:1144197/1‑100 (MQ=255)
                                 ccTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGAtt                                                               >  2:628439/1‑100 (MQ=255)
                                    cGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgcc                                                            <  2:144221/100‑1 (MQ=255)
                                      aCCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgccag                                                          <  1:1107364/100‑1 (MQ=255)
                                       ccAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgccagc                                                         <  2:203912/100‑1 (MQ=255)
                                       ccAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgccagc                                                         <  1:1435333/100‑1 (MQ=255)
                                       ccAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgccagc                                                         <  1:498434/100‑1 (MQ=255)
                                        cagtttacgCCGGGAAAAGGTGGATTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTgccag                                                          <  1:893713/90‑1 (MQ=255)
                                             aCTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATcc                                                    >  1:890755/1‑99 (MQ=255)
                                              cTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCgg                                                  >  1:431590/1‑100 (MQ=255)
                                                gCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGaa                                                >  2:201035/1‑100 (MQ=255)
                                                gCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGaa                                                >  1:451641/1‑100 (MQ=255)
                                                 ccGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAg                                               <  2:1176057/100‑1 (MQ=255)
                                                   ggAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTc                                             >  1:1178228/1‑100 (MQ=255)
                                                   ggAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTc                                             <  1:751634/100‑1 (MQ=255)
                                                     aaaaCGTTGAGTTAATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAt                                           >  2:974101/1‑100 (MQ=255)
                                                      aaaCGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAtc                                          <  1:345595/100‑1 (MQ=255)
                                                         cGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAtcttc                                       >  1:59364/1‑100 (MQ=255)
                                                         cGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAtcttc                                       >  2:67915/1‑100 (MQ=255)
                                                         cGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAtcttc                                       <  1:37561/100‑1 (MQ=255)
                                                          gTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCAtcttct                                      <  1:588566/100‑1 (MQ=255)
                                                            tGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGt                                    <  1:1450007/100‑1 (MQ=255)
                                                              aGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAc                                  >  1:1335990/1‑100 (MQ=255)
                                                              aGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAc                                  >  2:248608/1‑100 (MQ=255)
                                                              aGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAc                                  >  2:1572029/1‑100 (MQ=255)
                                                              aGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAc                                  >  2:612419/1‑100 (MQ=255)
                                                              aGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAc                                  >  2:1487070/1‑100 (MQ=255)
                                                               gTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAcc                                 <  2:679327/100‑1 (MQ=255)
                                                               gTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTAcc                                 >  2:951120/1‑100 (MQ=255)
                                                                     ccACGGTCCGGGGTGCCCGGTGTGGGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGc                           <  2:1448218/100‑1 (MQ=255)
                                                                     ccACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGc                           >  2:1506215/1‑100 (MQ=255)
                                                                      cACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCg                          <  1:612422/100‑1 (MQ=255)
                                                                      cACGGTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCg                          <  1:1572039/100‑1 (MQ=255)
                                                                         ggTCCGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACg                       >  2:70268/1‑100 (MQ=255)
                                                                            ccGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCa                    >  2:280891/1‑100 (MQ=255)
                                                                             cGGGGTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCAt                   >  1:73747/1‑100 (MQ=255)
                                                                               gggTGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATgc                 <  2:1478964/100‑1 (MQ=255)
                                                                                  tGCCCGGTGTGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGcgcg              <  1:1494241/100‑1 (MQ=255)
                                                                                        gtgtGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCgg        <  2:792053/100‑1 (MQ=255)
                                                                                        gtgtGCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCgg        >  1:1207359/1‑100 (MQ=255)
                                                                                         tgtgCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCggg       >  1:796216/1‑100 (MQ=255)
                                                                                         tgtgCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCggg       >  1:1204057/1‑100 (MQ=255)
                                                                                          gtgCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCGTCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCgggg      <  2:965887/100‑1 (MQ=255)
                                                                                            gCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGaa    >  1:1320485/1‑100 (MQ=255)
                                                                                            gCGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGaa    <  1:669191/100‑1 (MQ=255)
                                                                                             cGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGaaa   >  2:1211157/1‑100 (MQ=255)
                                                                                             cGTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGaaa   >  1:1073788/1‑100 (MQ=255)
                                                                                              gTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGAAAc  >  2:1537490/1‑100 (MQ=255)
                                                                                              gTACAGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGAAAc  >  2:140276/1‑100 (MQ=255)
                                                                                                  |                                                                                               
TGGCGGTCATACCCACGCTATCTTTAAATTCGGCCTCGACCAGTTACTGCCGGAAAACGTTGAGTTTATCCACGGTCCGGGGTGCCCGGTGTGCGTACTGCCGATGGGTAGAATCGACACCTGCGTGGAGATTGCCAGCCATCCGGAAGTCATCTTCTGTACCTTTGGCGACGCCATGCGCGTGCCGGGGAAAC  >  NC_000913/2852258‑2852451

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