Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 958,894 G→A E482K (GAA→AAA)  rpsA → 30S ribosomal protein S1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273958,8940GA95.0% 140.5 / ‑3.4 40E482K (GAA→AAA) rpsA30S ribosomal protein S1
Reads supporting (aligned to +/- strand):  ref base G (0/2);  new base A (22/16);  total (22/18)
Fisher's exact test for biased strand distribution p-value = 1.96e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCAGAAGATCCGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTGAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGACGAAGCT  >  NZ_CP009273/958759‑959025
                                                                                                                                       |                                                                                                                                   
gCAGAAGATCCGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTGAAg                                                                                                                                  <  1:1092173/139‑1 (MQ=255)
gCAGAAGATCCGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAg                                                                                                                                  <  1:683819/139‑1 (MQ=255)
         ccGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGc                                                                                                                                 <  1:148290/131‑1 (MQ=255)
         ccGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGc                                                                                                                                 >  2:148290/1‑131 (MQ=255)
            ttCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGAcc                                                                                                                      >  1:89671/1‑139 (MQ=255)
            ttCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGATACCTGCGTGCTTCTAAAGCATCCCGTGAcc                                                                                                                      >  1:320999/1‑139 (MQ=255)
                    cTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGaa                                                                                                              <  2:339527/139‑1 (MQ=255)
                         ttGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGc                                                                                                         <  2:322627/139‑1 (MQ=255)
                            ctctGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTAc                                                                                                      >  2:920598/1‑139 (MQ=255)
                               cgAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTAcc                                                                                                     <  2:889927/136‑1 (MQ=255)
                                      gAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCt                                                                                             >  2:1086148/1‑138 (MQ=255)
                                           gcgcTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAg                                                                                                                                  <  1:1154803/96‑1 (MQ=255)
                                           gcgcTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAg                                                                                                                                  >  2:1154803/1‑96 (MQ=255)
                                           gcgcTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGt                                                                                       >  2:959578/1‑139 (MQ=255)
                                                                tAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTaa                                                                  <  2:534460/139‑1 (MQ=255)
                                                                  aCTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAAt                                                                >  1:1237653/1‑139 (MQ=255)
                                                                      cAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCAc                                                            <  2:320999/139‑1 (MQ=255)
                                                                              gCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAg                                                                      >  2:777560/1‑121 (MQ=255)
                                                                              gCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAg                                                                      <  1:777560/121‑1 (MQ=255)
                                                                              gCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGtt                                                     >  1:25124/1‑138 (MQ=255)
                                                                                      cgcAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTg                                                    <  1:752955/131‑1 (MQ=255)
                                                                                      cgcAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTg                                                    >  2:752955/1‑131 (MQ=255)
                                                                                        cAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTaaaaa                                          >  2:1252623/1‑139 (MQ=255)
                                                                                        cAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTaaaaa                                          >  2:788266/1‑139 (MQ=255)
                                                                                           ccGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACcg                                       <  2:1237653/139‑1 (MQ=255)
                                                                                                gAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCaa                                  >  1:265545/1‑139 (MQ=255)
                                                                                                      gCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGc                                                                                                         <  1:204227/62‑1 (MQ=255)
                                                                                                      gCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGc                                                                                                         >  2:204227/1‑62 (MQ=255)
                                                                                                      gCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGcc                            >  2:50552/1‑139 (MQ=255)
                                                                                                                    aGGTTACCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCg              <  2:25124/139‑1 (MQ=255)
                                                                                                                         aCCTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGa         >  2:677654/1‑139 (MQ=255)
                                                                                                                          ccTGCGTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGAc        >  2:8369/1‑139 (MQ=255)
                                                                                                                               gTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACg                                                                                                          >  2:762439/1‑36 (MQ=255)
                                                                                                                               gTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACg                                                                                                          <  1:762439/36‑1 (MQ=255)
                                                                                                                               gTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCa                                   <  2:718035/107‑1 (MQ=255)
                                                                                                                               gTGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCa                                   >  1:718035/1‑107 (MQ=255)
                                                                                                                                tGCTTCTGAAGCATCCCGTGGCCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGACGAAGCt  <  1:848885/139‑1 (MQ=255)
                                                                                                                                tGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCAc                                                            <  2:575444/81‑1 (MQ=255)
                                                                                                                                tGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCAc                                                            >  1:575444/1‑81 (MQ=255)
                                                                                                                                tGCTTCTAAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGACGAAGCt  >  1:295715/1‑139 (MQ=255)
                                                                                                                                       |                                                                                                                                   
GCAGAAGATCCGTTCAACAACTGGGTTGCTCTGAACAAGAAAGGCGCTATCGTAACCGGTAAAGTAACTGCAGTTGACGCTAAAGGCGCAACCGTAGAACTGGCTGACGGCGTTGAAGGTTACCTGCGTGCTTCTGAAGCATCCCGTGACCGCGTTGAAGACGCTACCCTGGTTCTGAGCGTTGGCGACGAAGTTGAAGCTAAATTCACCGGCGTTGATCGTAAAAACCGCGCAATCAGCCTGTCTGTTCGTGCGAAAGACGAAGCT  >  NZ_CP009273/958759‑959025

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑