Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 435,402 T→A 12.1% L89Q (CTG→CAG)  nusB → transcription antitermination protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913435,4020TA12.1% 105.6 / 9.1 43L89Q (CTG→CAG) nusBtranscription antitermination protein
Reads supporting (aligned to +/- strand):  ref base T (15/21);  new base A (2/3);  total (19/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.18e-01

AAGACGTTGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGCCCTAACAAA  >  NC_000913/435258‑435550
                                                                                                                                                |                                                                                                                                                    
acgACGTTGCCGTCTGGTACTTCCGTGAGCGGCTGGCCGGGGTGGCGACTTATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGATAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTAc                                                                                                                                                  <  2:203710/147‑1 (MQ=255)
aaGACGTTGACGGCCTGTACGTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATTCCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTAc                                                                                                                                                  <  2:102662/149‑1 (MQ=255)
  gACGTTGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGa                                                                                                                                                <  2:730170/149‑1 (MQ=255)
   aCGTTGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGACAAAGCAGTACAGCGCAATGCGCAGTActgc                                                                                                                                               <  1:417527/149‑4 (MQ=255)
   aCGTTGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACAGCGCAATGCGCAGTActgc                                                                                                                                               <  2:65333/149‑4 (MQ=255)
   aCGCTGACGTTCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACAGCGCAATGCGCAGTActgc                                                                                                                                               <  2:741909/149‑4 (MQ=255)
      ttGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTg                                                                                                                                            >  1:650268/1‑149 (MQ=255)
                gTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTa                                                                                                                                  <  1:759626/149‑1 (MQ=255)
                  aCTTCCGTGAGCTGCTGGCCGGGATGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGAAGc                                                                                                                                >  1:757955/1‑149 (MQ=255)
                                      ggggTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGGCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGc                                                                                                            <  1:417990/149‑1 (MQ=255)
                                        ggTGGCTACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCa                                                                                                          <  1:597528/149‑1 (MQ=255)
                                        ggTGGCGACCAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCa                                                                                                          <  1:628191/149‑1 (MQ=255)
                                            gCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTaa                                                                                                      >  2:533002/1‑149 (MQ=255)
                                              gACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCGGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACg                                                                                                    >  2:195577/1‑149 (MQ=255)
                                                  aaTACCGCAGACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGc                                                                                                <  1:146770/149‑1 (MQ=255)
                                                   aTACCGCATACCTCGACGGACTGATGAAGCCATCCCTGTCCCGCCTGCTGGAAGAACTGGGACATGTAGAAACAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCCACAACGAAGCg                                                                                               >  2:721713/1‑149 (MQ=255)
                                                             ccTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTgg                                                                                     >  2:784053/1‑149 (MQ=255)
                                                              cTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGc                                                                                    >  1:256083/1‑149 (MQ=255)
                                                              cTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGc                                                                                    >  2:448369/1‑149 (MQ=255)
                                                                 gACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGaa                                                                                 >  2:778371/1‑149 (MQ=255)
                                                                     gACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTTGCCATTAACGAAGCGATCGAACTGGCGAAATCg                                                                             <  1:510812/149‑1 (MQ=255)
                                                                     gACTGATGAAGCCATACCTGTCCCGCCGGCTGGAAGAACTGGGACAGGAACAAAAGGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCg                                                                             <  1:579528/149‑1 (MQ=255)
                                                                        tgatgaAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAACGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCAATGTGCCATACAAAGTGGCCATTTACGAAGCGATCGAACTGGCGAAATCGTTc                                                                          <  2:439814/149‑1 (MQ=255)
                                                                        tgatgaAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTc                                                                          <  2:399874/149‑1 (MQ=255)
                                                                          atgaAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCgg                                                                        >  1:730760/1‑149 (MQ=255)
                                                                           tgaAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGgc                                                                       <  1:784053/149‑1 (MQ=255)
                                                                            gacgCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGGAGTACTGCGCATTGCGCTGTACGAACTGTCTAAGCGTAGCGATGTGGCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGccg                                                                      <  2:141623/146‑1 (MQ=255)
                                                                                                 gctgGAACAACTGGGACAGGTAGAAAACGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCg                                                 <  1:501083/149‑1 (MQ=255)
                                                                                                           cggggACAGGTAGAAAAAGCAGTACTGCGCATTGCGCGGGACGAACTGTCTAAACGTAGCGATGTGCCATGCAAAGTGGCCAGGAACGAAGCGAGCGAACCGACGAAAGCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCCACGGCGt                                       >  2:203050/3‑149 (MQ=255)
                                                                                                              ggACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACt                                    >  1:56292/1‑149 (MQ=255)
                                                                                                               gACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGCAATCGTTCGGCGCAGAAGACAGCCATCAGTTCGTCACCGGCGTACTc                                   >  1:616533/1‑149 (MQ=255)
                                                                                                               gACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTtctc                                   >  1:603205/1‑149 (MQ=255)
                                                                                                               gACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTc                                   <  2:434858/149‑1 (MQ=255)
                                                                                                               gACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTc                                   >  2:529917/1‑149 (MQ=255)
                                                                                                                      aGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGCCAGCGATAAGTTCGTCAACGGCGTACTCGATAAag                            <  1:195577/149‑1 (MQ=255)
                                                                                                                         aaaaGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAagcag                         >  2:172326/1‑149 (MQ=255)
                                                                                                                          aaaGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAagcagc                        >  1:796516/1‑149 (MQ=255)
                                                                                                                            gttcgTACAGCGCAATGCGCAGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCAc                      >  1:339667/5‑149 (MQ=255)
                                                                                                                             ttcgTACAGCGCAATGCGCAGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCAcc                     >  1:117359/4‑149 (MQ=255)
                                                                                                                                 tACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCtgtg                 <  2:650268/149‑1 (MQ=255)
                                                                                                                                        cATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGcc          <  1:726854/149‑1 (MQ=255)
                                                                                                                                        cATTGCGCTGTACAAACTGCCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAAGCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGcc          <  1:373026/149‑1 (MQ=255)
                                                                                                                                           tGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGCCCTa       <  2:453629/149‑1 (MQ=255)
                                                                                                                                                tGTACGAACTGTCTAAACGCAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGCCCTAACaaa  <  1:549458/149‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                    
AAGACGTTGACGTCCTGTACTTCCGTGAGCTGCTGGCCGGGGTGGCGACTAATACCGCATACCTCGACGGACTGATGAAGCCATACCTGTCCCGCCTGCTGGAAGAACTGGGACAGGTAGAAAAAGCAGTACTGCGCATTGCGCTGTACGAACTGTCTAAACGTAGCGATGTGCCATACAAAGTGGCCATTAACGAAGCGATCGAACTGGCGAAATCGTTCGGCGCAGAAGACAGCCATAAGTTCGTCAACGGCGTACTCGATAAAGCAGCACCTGTGATTCGCCCTAACAAA  >  NC_000913/435258‑435550

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: ‑