Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,440,212 T→A E273V (GAA→GTA)  rpoA ← RNA polymerase, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,440,2120TA98.2% 200.3 / ‑3.5 54E273V (GAA→GTA) rpoARNA polymerase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base A (30/23);  total (31/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.19e-01

GCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAGCTTCCAGTTG  >  NC_000913/3440066‑3440351
                                                                                                                                                  |                                                                                                                                           
gCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGc                                                                                                                                         >  1:88224/1‑151 (MQ=255)
  cAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCtt                                                                                                                                       >  2:558420/1‑151 (MQ=255)
      tttCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTaa                                                                                                                                    <  1:293449/150‑1 (MQ=255)
          cAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAg                                                                                                                               <  1:275932/151‑1 (MQ=255)
             gcgcATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGtt                                                                                                                             >  1:598948/1‑150 (MQ=255)
             gcgcATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTa                                                                                                                            <  1:508802/151‑1 (MQ=255)
               gcATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGc                                                                                                                          >  2:42860/1‑151 (MQ=255)
               gcATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGc                                                                                                                          >  2:232170/1‑151 (MQ=255)
                  tGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGc                                                                                                                          >  2:489579/1‑148 (MQ=255)
                      cAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCgg                                                                                                                   >  2:720035/1‑151 (MQ=255)
                       agagACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGATAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCgg                                                                                                                   >  2:658418/1‑150 (MQ=255)
                        gagaCAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCTGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGAc                                                                                                                 <  2:321883/151‑1 (MQ=255)
                          gaCAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGAc                                                                                                                 >  1:679823/1‑149 (MQ=255)
                          gaCAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAg                                                                                                               <  2:280991/151‑1 (MQ=255)
                                    gggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTcc                                                                                                       >  2:583688/1‑149 (MQ=255)
                                     ggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTcc                                                                                                       >  1:9843/1‑148 (MQ=255)
                                     ggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTAAGGCGTTTTAAGGAGCTTAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTcc                                                                                                       >  1:512907/1‑148 (MQ=255)
                                       aaGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATc                                                                                                  <  2:531779/151‑1 (MQ=255)
                                       aaGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATc                                                                                                  <  1:258633/151‑1 (MQ=255)
                                           cAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCa                                                                                              <  2:654305/151‑1 (MQ=255)
                                                cGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACACTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAg                                                                                          >  2:443955/1‑150 (MQ=255)
                                                  tCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGgc                                                                                       >  1:364828/1‑151 (MQ=255)
                                                     ttAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGgcgc                                                                                     <  1:265996/150‑1 (MQ=255)
                                                       aaTCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCgcagc                                                                                  >  2:283520/1‑151 (MQ=255)
                                                          ctcAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAgg                                                                               >  1:19566/1‑151 (MQ=255)
                                                            cAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCgcagca                                                                                 <  2:565164/147‑1 (MQ=255)
                                                            cAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAggat                                                                             <  2:737191/151‑1 (MQ=255)
                                                             aGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAggatc                                                                            <  2:356924/151‑1 (MQ=255)
                                                               tAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAggatcgg                                                                          >  2:589369/1‑151 (MQ=255)
                                                                 agagATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAggatcggat                                                                        <  2:541899/151‑1 (MQ=255)
                                                                   agaTTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGgatcggatcg                                                                      <  2:626640/151‑1 (MQ=255)
                                                                      ttttttACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAAc                                                                   >  2:276543/1‑151 (MQ=255)
                                                                           tACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTg                                                               <  1:20330/150‑1 (MQ=255)
                                                                             ccAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGtt                                                            >  2:235740/1‑151 (MQ=255)
                                                                                aGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTtct                                                         <  1:240111/151‑1 (MQ=255)
                                                                                  gTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTctct                                                       <  2:662049/151‑1 (MQ=255)
                                                                                      ggCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTcttctt                                                   >  2:291893/1‑151 (MQ=255)
                                                                                        cGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTc                                                 >  2:333364/1‑151 (MQ=255)
                                                                                         gTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCa                                                <  2:598944/151‑1 (MQ=255)
                                                                                           tttAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACt                                              >  1:472227/1‑151 (MQ=255)
                                                                                              aaGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCa                                           <  2:591031/151‑1 (MQ=255)
                                                                                                 gAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGc                                        <  1:739641/151‑1 (MQ=255)
                                                                                                     tCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGAc                                    >  2:16309/1‑151 (MQ=255)
                                                                                                       aaCCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGt                                  >  2:509658/1‑151 (MQ=255)
                                                                                                             ggTACGCTGTACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATc                             >  2:181087/1‑150 (MQ=255)
                                                                                                                  gCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTa                        >  1:128137/1‑150 (MQ=255)
                                                                                                                      tACCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTc                    >  1:526866/1‑150 (MQ=255)
                                                                                                                       aCCAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCa                   >  2:625113/1‑150 (MQ=255)
                                                                                                                        ccAGATCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAAc                 >  2:336456/1‑151 (MQ=255)
                                                                                                                            aTCACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGaa              >  2:39228/1‑150 (MQ=255)
                                                                                                                              cACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAg            <  2:741412/150‑1 (MQ=255)
                                                                                                                              cACCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAg            <  1:172205/150‑1 (MQ=255)
                                                                                                                               aCCGATATAGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAGCt          >  1:686583/1‑151 (MQ=255)
                                                                                                                                       aGTGGATAGCTACTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAGCTTCCAgttg  <  2:626704/151‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                           
GCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCAGCAGGATCGGATCGAACTCTGGTTTCTCTTCTTTCACTTCAGGCTGACGTACATCACGTAAGTCAACGAAAGCTTCCAGTTG  >  NC_000913/3440066‑3440351

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑