Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 4,183,165 G→A 100% E641K (GAA→AAA)  rpoB → RNA polymerase, beta subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,183,1650GA94.3% 164.2 / 1.1 53E641K (GAA→AAA) rpoBRNA polymerase, beta subunit
Reads supporting (aligned to +/- strand):  ref base G (2/1);  new base A (25/25);  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 = 6.69e-01
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAACATGCAACGTCA  >  NC_000913/4183019‑4183307
                                                                                                                                                  |                                                                                                                                              
gTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCaaa                                                                                                                                              <  2:349792/149‑1 (MQ=255)
  aaaGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAAt                                                                                                                                             >  4:212273/1‑148 (MQ=255)
       gACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCt                                                                                                                                       <  1:83169/149‑1 (MQ=255)
            aCGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCGAAGGCAAATCCAGCTTGTTc                                                                                                                                  <  1:295402/149‑1 (MQ=255)
             cGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTc                                                                                                                                  <  3:147723/148‑1 (MQ=255)
                tgttgtAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGcc                                                                                                                              >  2:265175/1‑149 (MQ=255)
                       aCTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGAcc                                                                                                                        >  4:272660/1‑148 (MQ=255)
                         tGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAg                                                                                                                      <  3:212273/148‑1 (MQ=255)
                             gAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGa                                                                                                                 >  2:328512/1‑149 (MQ=255)
                               aaTTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACt                                                                                                               >  2:99734/1‑149 (MQ=255)
                                 ttCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTa                                                                                                              >  3:320677/1‑148 (MQ=255)
                                 ttCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTAc                                                                                                             >  1:238937/1‑149 (MQ=255)
                                    aCTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATg                                                                                                          <  1:283059/149‑1 (MQ=255)
                                       aCCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGa                                                                                                        <  4:361756/148‑1 (MQ=255)
                                       aCCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGa                                                                                                        <  3:272660/148‑1 (MQ=255)
                                             cTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGAcagaga                                                                                                  <  4:382604/148‑6 (MQ=255)
                                               gCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAgg                                                                                                                     <  3:390078/127‑1 (MQ=255)
                                               gCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAgg                                                                                                                     >  4:390078/1‑127 (MQ=255)
                                                 tATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCAcc                                                                                              <  3:192484/148‑1 (MQ=255)
                                                          agGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAggtg                                                                                     <  3:81850/148‑1 (MQ=255)
                                                           ggCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCa                                                                                                >  2:351512/1‑136 (MQ=255)
                                                           ggCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCa                                                                                                <  1:351512/136‑1 (MQ=255)
                                                            gCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAggtggt                                                                                   >  4:403293/1‑148 (MQ=255)
                                                             cAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTa                                                                                  <  4:98250/148‑1 (MQ=255)
                                                              aaCTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGtt                                                                                                                                   <  2:88257/98‑1 (MQ=255)
                                                              aaCTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGtt                                                                                                                                   >  1:88257/1‑98 (MQ=255)
                                                              aaCTACGTTATCGCCCAGGCGAACTCAAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATc                                                                                >  1:205617/1‑149 (MQ=255)
                                                                cTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATcc                                                                               >  3:208836/1‑148 (MQ=255)
                                                                    gTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCgg                                                                          >  1:221051/1‑149 (MQ=255)
                                                                     ttATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGt                                                                         <  2:238937/149‑1 (MQ=255)
                                                                          gCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCcagc                                                                                          >  4:358893/1‑127 (MQ=255)
                                                                          gCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGCTGACTACATGGACGTATCCACCcagc                                                                                          <  3:358893/127‑1 (MQ=255)
                                                                                      tCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGtt                                                        >  2:149331/1‑149 (MQ=255)
                                                                                               gATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAac                                                <  4:61835/148‑1 (MQ=255)
                                                                                                 tGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACg                                             <  1:99734/149‑1 (MQ=255)
                                                                                                     gaagGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGa                                         <  1:116385/149‑1 (MQ=255)
                                                                                                        ggCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGc                                      >  2:103737/1‑149 (MQ=255)
                                                                                                              ttCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGTCGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCg                                >  1:351675/1‑149 (MQ=255)
                                                                                                                   agaagaCCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCa                            >  3:85713/1‑148 (MQ=255)
                                                                                                                      agaCCTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGa                        >  2:152989/1‑149 (MQ=255)
                                                                                                                        aCCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGAt                       >  4:161346/1‑148 (MQ=255)
                                                                                                                         ccTGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATg                      <  4:85713/148‑1 (MQ=255)
                                                                                                                           tGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGt                   <  2:134222/149‑1 (MQ=255)
                                                                                                                           tGGTAACTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTACCTGGACCACGATGACGCCAACCGTGCATTGATGGGt                   <  2:115209/149‑1 (MQ=255)
                                                                                                                                 cTTGCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAAc             <  1:328512/149‑1 (MQ=255)
                                                                                                                                    gCCGTAGCAAAGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAACAt           >  3:299672/1‑148 (MQ=255)
                                                                                                                                         aGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAACATGCAACg     >  2:205275/1‑149 (MQ=255)
                                                                                                                                            aaaGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGaa              >  1:300880/1‑137 (MQ=255)
                                                                                                                                            aaaGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGaa              <  2:300880/137‑1 (MQ=255)
                                                                                                                                            aaaGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAACATGCAACGTCa  >  1:326439/1‑149 (MQ=255)
                                                                                                                                             aaGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCgg                                                                          >  4:259150/1‑76 (MQ=255)
                                                                                                                                             aaGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCgg                                                                          <  3:259150/76‑1 (MQ=255)
                                                                                                                                              aGGCAAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATg                      <  3:28643/127‑1 (MQ=255)
                                                                                                                                              aGGCAAATCCAGCTTGCTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATg                      >  4:28643/1‑127 (MQ=255)
                                                                                                                                                  |                                                                                                                                              
GTAAAGTGACCGACGGTGTTGTAACTGACGAAATTCACTACCTGTCTGCTATCGAAGAAGGCAACTACGTTATCGCCCAGGCGAACTCCAACTTGGATGAAGAAGGCCACTTCGTAGAAGACCTGGTAACTTGCCGTAGCAAAGGCGAATCCAGCTTGTTCAGCCGCGACCAGGTTGACTACATGGACGTATCCACCCAGCAGGTGGTATCCGTCGGTGCGTCCCTGATCCCGTTCCTGGAACACGATGACGCCAACCGTGCATTGATGGGTGCGAACATGCAACGTCA  >  NC_000913/4183019‑4183307

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑