Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,441,060 T→C 7.6% K206E (AAG→GAG)  rpsD ← 30S ribosomal subunit protein S4

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,441,0600TC 7.6% 138.0 / 2.9 53K206E (AAG→GAG) rpsD30S ribosomal subunit protein S4
Reads supporting (aligned to +/- strand):  ref base T (25/24);  new base C (2/2);  total (27/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.69e-01

TATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTCAGCCAGCTCCAG  >  NC_000913/3440918‑3441201
                                                                                                                                              |                                                                                                                                             
tATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTGGAACTCACTTGCTCGATATCAACCCGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACtt                                                                                                                                               >  2:888749/1‑143 (MQ=255)
     ccAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGt                                                                                                                                          >  1:37544/1‑143 (MQ=255)
        aaGCCACGCTCTAGAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACGTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTaaa                                                                                                                                       <  2:860018/143‑1 (MQ=255)
         aGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAg                                                                                                                                      <  2:396071/143‑1 (MQ=255)
           ccACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATAGCAACCAGGCGCGGTCTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCt                                                                                                                                    >  2:891436/1‑143 (MQ=255)
             aCGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTGAGCTTTACTCCAAGTAAAGCtta                                                                                                                                  <  1:528469/143‑3 (MQ=255)
             aCGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAAACAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTGAGCTTTACTCCAAGTAAAGCtta                                                                                                                                  <  1:568832/143‑3 (MQ=255)
              cGCTCTAAATGCTCATGTGTCACCTTGTCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTcga                                                                                                                                 <  1:746327/143‑1 (MQ=255)
                  ctAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATAACAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGAt                                                                                                                             <  1:78143/143‑1 (MQ=255)
                   tAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATc                                                                                                                            >  1:610056/1‑143 (MQ=255)
                   aacaGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATc                                                                                                                            <  1:640953/140‑1 (MQ=255)
                        gCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGATCGACGATCAGgtg                                                                                                                       >  1:365837/1‑143 (MQ=255)
                          tCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGgtggt                                                                                                                     >  1:722373/1‑141 (MQ=255)
                           gaaGGGGCCCCTTGGCTTGCGTCGAACCCACTTGCTCGATATCAACCGGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGCAGTAAAGCTCGACGATCAGGTGTTc                                                                                                                    <  2:319764/142‑1 (MQ=255)
                           cAAGGGTCACCTTGGCGGGCGTCGAACTCACTTGTCCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTc                                                                                                                    <  1:29873/143‑1 (MQ=255)
                                 tCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAAt                                                                                                              <  2:882224/143‑1 (MQ=255)
                                         gcgtgcgtCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGcag                                                                                                      <  1:56572/143‑1 (MQ=255)
                                           gtgcgtCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTCCGTTAATGTCCGcagac                                                                                                    >  2:871695/1‑143 (MQ=255)
                                            tgcgtCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGcagaca                                                                                                   >  1:527840/1‑143 (MQ=255)
                                               gtCGACCTCACTTGCTCGATAGCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTACAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGAt                                                                                                <  2:507237/143‑1 (MQ=255)
                                                    aCTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCAACTTGGTACTAAGCTATACTTGGAGTAAAGATCGACGAGCAGGTGTACATTACTATCAGCAGACAGATCAGaa                                                                                           >  2:616077/1‑143 (MQ=255)
                                                           tGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCg                                                                                    <  1:638224/143‑1 (MQ=255)
                                                             cTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTACAGCTCGACGACCAGGTGTCCGCTAATGTCCGCAGACAGAACAGAACACTCCAGc                                                                                  >  2:490594/1‑143 (MQ=255)
                                                             cTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGc                                                                                  <  1:837610/143‑1 (MQ=255)
                                                                    tCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCt                                                                           >  1:109375/1‑143 (MQ=255)
                                                                     cAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCGTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCtt                                                                          <  1:452803/143‑1 (MQ=255)
                                                                      aaCCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCCTACGCTTa                                                                         >  1:700826/1‑143 (MQ=255)
                                                                        ccAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTaaa                                                                       <  1:539168/143‑1 (MQ=255)
                                                                         cAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCCCCGGCTTACGCTTaagc                                                                      >  1:841673/1‑141 (MQ=255)
                                                                          aGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCGTACGCTTACACg                                                                     >  1:311633/1‑143 (MQ=255)
                                                                                  ttttAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTATGCTACTAAGCTTTACATGGAGGAAAGCTCGACGAGCAGGTGCTCGCTACTTTTAGCAGACAGACCAGCACGCTCCGGCTTACACTTACACCTACCTTcc                                                             >  2:146497/1‑143 (MQ=255)
                                                                                    ttAGAAACTCTGTCGCAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCGTTACTTGGAGTAAAGCTCGACGAGCAGGTGTTCGTTAGTGTCCGCAGGCGGGTCAGCACGCTCCGGCTTACGCTGAACCGTCCCTCCCAt                                                           >  1:359350/1‑143 (MQ=255)
                                                                                        aaaCTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTg                                                       <  1:891436/143‑1 (MQ=255)
                                                                                           ctctGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCa                                                    <  2:562229/143‑1 (MQ=255)
                                                                                            tctGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGCGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCAATCTTGCCAg                                                   >  1:745937/1‑143 (MQ=255)
                                                                                              tGTCAAAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAACGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCa                                                 >  2:757825/1‑143 (MQ=255)
                                                                                               gTCACAGAACCCTGGATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCAt                                                <  2:248467/143‑1 (MQ=255)
                                                                                                tCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATc                                               >  2:469379/1‑143 (MQ=255)
                                                                                                          cTGCTTTGTGTCCTCTCTTTGGTATTAATCTTTACTTGGAGTCAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTccagc                                     <  2:438996/143‑1 (MQ=255)
                                                                                                            gcgttGTGTCCTCTGTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTccagcca                                   <  2:639174/140‑1 (MQ=255)
                                                                                                            gCATCGTGCCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTCAACGTACCTTCCATCTTGCCAGCATCAACTTccagcca                                   <  2:798845/143‑1 (MQ=255)
                                                                                                                      ctctctTTGGTACTAAGCTATACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCatt                         >  2:328994/1‑143 (MQ=255)
                                                                                                                       tctctTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCtttt                        >  1:886225/1‑143 (MQ=255)
                                                                                                                         tctTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCCGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCGTCTACTTGCGTCCAGGTTGGCttttga                      >  1:576476/1‑141 (MQ=255)
                                                                                                                         tctGTGGTACTAAGCTTTGCTTGGAGTAAAGCGCGACGAGCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCa                      <  1:146497/143‑1 (MQ=255)
                                                                                                                               gTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACgctgc                >  1:526202/1‑143 (MQ=255)
                                                                                                                                  cTATGCTTTACTTGTCGTAAACGTCTCGGATCAGGTGTTCGTTAATGTACGCAGACAGACCAGAACTCGCCGTTTTACGCTTAAACGTTCCTTCCATCTTGCCCGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTca             <  2:189743/143‑1 (MQ=255)
                                                                                                                                  cTAAGCTTTACTTGGAGTAAAGCTCGACGCTCAAGTGCTTGCGAAGGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTca             <  1:378549/143‑1 (MQ=255)
                                                                                                                                   tAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTcag            >  1:298051/1‑143 (MQ=255)
                                                                                                                                     aGCTTTACTCCAAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGCTCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTTCCAGCACCAACTTCCACCCAGGCTGGCGTTTCCCGCCGCCcagcc          >  1:388352/1‑143 (MQ=255)
                                                                                                                                     aGCTTTACTCCAAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTcagcc          >  1:263579/1‑143 (MQ=255)
                                                                                                                                       cTTTACTTGGAGTAAAGCTCGACGATCAGATGTTCGTTAATGTCCGCAGACAGATCAGAACACTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCCACTTCCAGCCAGGTTGGCTTTTCACGCTGCTaaaccag        >  2:293676/1‑143 (MQ=255)
                                                                                                                                          tACTTGGAGTAACGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCTGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTCAGCCAGCTc     <  1:874285/143‑1 (MQ=255)
                                                                                                                                           aCTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTCAGCCAGCTcc    >  1:331545/1‑143 (MQ=255)
                                                                                                                                             ttGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTGGGCTTTTCACGCTGCTCCGCCAGCTCCag  >  1:452283/1‑143 (MQ=255)
                                                                                                                                              |                                                                                                                                             
TATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAAGCTCGACGATCAGGTGTTCGTTAATGTCCGCAGACAGATCAGAACGCTCCGGCTTACGCTTAAACGTACCTTCCATCTTGCCAGCATCAACTTCCAGCCAGGTTGGCTTTTCACGCTGCTCAGCCAGCTCCAG  >  NC_000913/3440918‑3441201

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑