Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,191,971 T→A 8.6% N560I (AAC→ATC)  upxB ← phosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,191,9710TA 8.6% 126.7 / 2.1 46N560I (AAC→ATC) upxBphosphatase
Reads supporting (aligned to +/- strand):  ref base T (23/19);  new base A (2/2);  total (25/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTGCCGCTGGCATCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCGGGCCGCGTGGGTT  >  NC_002947/1191824‑1192116
                                                                                                                                                     |                                                                                                                                                 
ttGCCGCTGGCATCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGtt                                                                                                                                                  <  2:10628/149‑1 (MQ=255)
    cGCTGGCATCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCTGGGGCGAACTGGtt                                                                                                                                                  >  1:123121/1‑147 (MQ=255)
         gCATCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCTGGGCT‑‑GGCGAACTGAACCAGTTCgc                                                                                                                                          <  6:349046/148‑2 (MQ=255)
           aTCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGt                                                                                                                                         >  6:80784/1‑147 (MQ=255)
               accaGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTAGGTCAAGGTGGTTTCGACGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGATCAGTTCGGTCAGGcc                                                                                                                                   >  6:122335/1‑149 (MQ=255)
                  aGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGa                                                                                                                                <  5:80784/149‑1 (MQ=255)
                            ggATCACCGGCTGCTGCTGGTCGTTGTTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCTGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGAt                                                                                                                       <  6:356146/148‑1 (MQ=255)
                             gATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACAGGTTCAGTTCGGTCAAGCAGGAGCGGTTGAt                                                                                                                       >  3:263057/1‑147 (MQ=255)
                             gATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTAGCGAAGCTCATCCCGTCGGGGCT‑‑GGCGAACTCGTTCAGGTCGGTCAGGCCGGAGCGGATGATGt                                                                                                                     >  5:36459/1‑149 (MQ=255)
                               tCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAg                                                                                                                               >  8:122146/1‑137 (MQ=255)
                               tCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAg                                                                                                                               <  7:122146/137‑1 (MQ=255)
                                    gCCAGCAGCTGGTCGTTGGTGTAGTAGGTCAAGGTGGTTTCGCCGTTGTCGGTATCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGt                                                                                                              >  2:175014/1‑149 (MQ=255)
                                      cagcagCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGc                                                                                                            <  1:175014/149‑1 (MQ=255)
                                           gcTGGTCGTTGGTGTAGTCGGTCAAGGTGGGTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCa                                                                                                       <  6:189511/149‑1 (MQ=255)
                                            cTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGa                                                                                                                                <  6:369607/123‑1 (MQ=255)
                                            cTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGa                                                                                                                                >  5:369607/1‑123 (MQ=255)
                                                               gTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGaa                                                                                   >  2:315351/1‑149 (MQ=255)
                                                                       ggtTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTcc                                                                            >  4:54414/1‑148 (MQ=255)
                                                                        gtTTAGCCGTTGTAGGGATCGAACCAGAGCACGCCTCGTCTATCGAAGCTCATGCCGGCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCa                                                                          <  6:36459/149‑1 (MQ=255)
                                                                              ccGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTaaa                                                                    <  6:364638/149‑1 (MQ=255)
                                                                                       gTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGTTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGACGAACACGAAGATGTCCCAGGTAAAGCTCAGCTg                                                           >  5:256976/1‑149 (MQ=255)
                                                                                        tctcGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAg                                                                         <  5:115359/134‑1 (MQ=255)
                                                                                        tctcGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAg                                                                         >  6:115359/1‑134 (MQ=255)
                                                                                        tctcGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTgg                                                          >  2:155877/1‑149 (MQ=255)
                                                                                               ccACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGAt                                                                                                                       <  8:128576/81‑1 (MQ=255)
                                                                                               ccACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGAt                                                                                                                       >  7:128576/1‑81 (MQ=255)
                                                                                                     cACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGt                                             <  2:123121/149‑1 (MQ=255)
                                                                                                     cACGCCTCGGCTATCGAAGCTCATGACGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCACCGTTGGCGCCGAAAACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGt                                             >  3:251470/1‑149 (MQ=255)
                                                                                                       cGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGc                                           <  1:315351/149‑1 (MQ=255)
                                                                                                         ccTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTg                                                           >  1:104330/1‑131 (MQ=255)
                                                                                                         ccTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTg                                                           <  2:104330/131‑1 (MQ=255)
                                                                                                                    gAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGAtgt                              <  3:54414/149‑1 (MQ=255)
                                                                                                                         tCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCg                         >  4:51089/1‑149 (MQ=255)
                                                                                                                          cATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCg                                              <  3:239126/127‑1 (MQ=255)
                                                                                                                          cATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCg                                              >  4:239126/1‑127 (MQ=255)
                                                                                                                           aTGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTg                       >  3:121995/1‑149 (MQ=255)
                                                                                                                              ccGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCg                    >  3:351309/1‑149 (MQ=255)
                                                                                                                              ccGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCg                    >  7:7689/1‑149 (MQ=255)
                                                                                                                               cGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACg                                                                                     <  6:222922/83‑1 (MQ=255)
                                                                                                                               cGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACg                                                                                     >  5:222922/1‑83 (MQ=255)
                                                                                                                                   ggggCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCg               >  6:96800/1‑149 (MQ=255)
                                                                                                                                      gCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCGGGc            <  1:155877/149‑1 (MQ=255)
                                                                                                                                         tgaccGAACTGAACCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCg               >  8:138054/5‑145 (MQ=255)
                                                                                                                                         tgaccGAACTGAACCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCg               <  7:138054/141‑1 (MQ=255)
                                                                                                                                            gCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCGGGCcgcg        >  1:317493/1‑149 (MQ=255)
                                                                                                                                                    gTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGAtgtg                             <  1:40057/120‑1 (MQ=255)
                                                                                                                                                    gTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGAtgtg                             >  2:40057/1‑120 (MQ=255)
                                                                                                                                                    gTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCGGGCCGCGTGGGtt  <  4:351309/147‑1 (MQ=255)
                                                                                                                                                     |                                                                                                                                                 
TTGCCGCTGGCATCCACCAGGTCGGTAGGGATCACCGCCAGCAGCTGGTCGTTGGTGTAGTCGGTCAAGGTGGTTTCGCCGTTGTCGGTCTCGAACCACAGCACGCCTCGGCTATCGAAGCTCATGCCGTCGGGGCT‑‑GGCGAACTGGTTCAGTTCGGTCAGGCCGGAGCGGTTGATGTCGGCGGTGCCGGCAGCGTTGGCGCCGAACACGAAGATGTCCCAGGTAAAGCTCAGCTGGTCGTCGCTGTCGTGCCAGCGAATGATGTGGCCGTGGCGGTTCGGGCCGCGTGGGTT  >  NC_002947/1191824‑1192116

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑