Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,316,522 T→C E335E (GAA→GAG)  nusA ← transcription termination/antitermination protein NusA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,316,5220TC94.3% 105.2 / ‑2.3 35E335E (GAA→GAG) nusAtranscription termination/antitermination protein NusA
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (20/13);  total (21/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

TCGAGAAGCCTTCTTCTACCAGAACAGTCGCGAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAACGTCTGCC  >  NC_000913/3316389‑3316657
                                                                                                                                     |                                                                                                                                       
tCGAGAAGCCTTCTTCTACCAGAACAGTCGCGAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCaa                                                                                                                                   >  1:80329/1‑140 (MQ=255)
tCGAGAAGCCTTCTTCTACCAGAACAGTCGCGAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCaa                                                                                                                                   >  1:76927/1‑140 (MQ=255)
                            cgcgAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCg                                                                                                                      <  2:152599/125‑1 (MQ=255)
                            cgcgAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCg                                                                                                                      >  1:152599/1‑125 (MQ=255)
                                aaGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGTTGCGAAGCCAGACGCACGTTCTg                                                                                                   >  1:11108/1‑140 (MQ=255)
                                     ttCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCATGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGt                                                                                              >  1:307530/1‑140 (MQ=255)
                                             tGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCa                                                                                      >  1:243365/1‑140 (MQ=255)
                                                            tGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAgg                                                                       >  1:269994/1‑140 (MQ=255)
                                                               aGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTa                                                                    >  1:343239/1‑140 (MQ=255)
                                                               aGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTa                                                                    >  1:87865/1‑140 (MQ=255)
                                                                    tCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGc                                                               >  2:83378/1‑140 (MQ=255)
                                                                    tCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGc                                                               >  1:292226/1‑140 (MQ=255)
                                                                      gATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCtt                                                             >  1:308666/1‑140 (MQ=255)
                                                                       aTCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTc                                                            <  2:269994/140‑1 (MQ=255)
                                                                           cTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACg                                                        >  1:352835/1‑140 (MQ=255)
                                                                           cTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACg                                                        >  2:18157/1‑140 (MQ=255)
                                                                              cgtgcgCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACg                                                        <  1:286139/137‑1 (MQ=255)
                                                                              cgtgcgCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACg                                                        >  2:286139/1‑137 (MQ=255)
                                                                               gtgcgCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGa                                                    <  2:352835/140‑1 (MQ=255)
                                                                               gtgcgCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGa                                                    <  2:161077/140‑1 (MQ=255)
                                                                                    cTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATcc                                               <  2:76927/140‑1 (MQ=255)
                                                                                    cTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATcc                                               <  1:18157/140‑1 (MQ=255)
                                                                                      tCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCAt                                             >  1:290192/1‑140 (MQ=255)
                                                                                        caccTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATgg                                           >  1:274149/3‑140 (MQ=255)
                                                                                        cGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATgg                                           <  2:343239/140‑1 (MQ=255)
                                                                                         gCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGgt                                          <  1:83378/140‑1 (MQ=255)
                                                                                               tGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATcc                                               >  2:321712/1‑129 (MQ=255)
                                                                                               tGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATcc                                               <  1:321712/129‑1 (MQ=255)
                                                                                               tGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGttt                                    >  2:144815/1‑140 (MQ=255)
                                                                                                 cTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTAt                                  <  2:292226/140‑1 (MQ=255)
                                                                                                      ccTGCAGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCa                             <  2:243365/140‑1 (MQ=255)
                                                                                                           aGGTCGTCAACGGTCATCACGTTGAGCTCCCAACCGCTCAGTTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATccac                        <  2:11108/140‑1 (MQ=255)
                                                                                                               cgtcAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACg                    >  1:151455/1‑140 (MQ=255)
                                                                                                                gtcAACGGTCATCACGTTGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGa                   <  2:307530/140‑1 (MQ=255)
                                                                                                                                 tGAGCTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAACGTCTGcc  >  2:155987/1‑140 (MQ=255)
                                                                                                                                     |                                                                                                                                       
TCGAGAAGCCTTCTTCTACCAGAACAGTCGCGAAGTCTTCGTCGATGTCGAGATATTTGGTGAAGGTGTCGATCGCTGCGTGCGCTTCCGCCTGATGCTTAGCCTGCAGGTCGTCAACGGTCATCACGTTGAGTTCCCAACCGCTCAGCTGCGAAGCCAGACGCACGTTCTGACCGTTACGGCCAATCGCCTGCGCCAGGTTACCGGCTTCAACGGCGATATCCATGGTGTGTTTATCTTCATCCACCACGATAGAAGCAACGTCTGCC  >  NC_000913/3316389‑3316657

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑