Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,971,151 T→C 9.4% intergenic (+18/‑120) ygdQ → / → ygdR UPF0053 family inner membrane protein/DUF903 family verified lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,971,1510TC 9.4% 160.9 / 7.0 53intergenic (+18/‑120)ygdQ/ygdRUPF0053 family inner membrane protein/DUF903 family verified lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (23/25);  new base C (2/3);  total (25/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.25e-01

TGGTGGGCTTTACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAATGGGCAGTAATAATT  >  NC_000913/2971003‑2971294
                                                                                                                                                    |                                                                                                                                                
tggtggGCTTTACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCt                                                                                                                                                  >  2:491808/1‑149 (MQ=255)
   tggGCTTTACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCg                                                                                                                                               >  3:221628/1‑149 (MQ=255)
        tttACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAgg                                                                                                                                          <  2:307761/149‑1 (MQ=255)
        tttACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAgg                                                                                                                                          <  4:31000/149‑1 (MQ=255)
          tACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCCCTCCCGCAGGAGAGc                                                                                                                                        <  3:550125/149‑1 (MQ=255)
             ccTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCCCTCCCGCAGGAgagc                                                                                                                                        >  4:228868/1‑143 (MQ=255)
             ccTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCCCTCCCGCAGGAGAGc                                                                                                                                        <  3:228868/146‑1 (MQ=255)
             ccTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCCCTCCCGCAGGAGAGCGTa                                                                                                                                     <  4:303408/149‑1 (MQ=255)
              cTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTac                                                                                                                                    <  4:221628/149‑1 (MQ=255)
               tGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTact                                                                                                                                   >  3:89422/1‑149 (MQ=255)
                         aaGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCtttt                                                                                                                         <  2:109485/149‑1 (MQ=255)
                            tttCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTAcc                                                                                                                      >  2:349535/1‑149 (MQ=255)
                            tttCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTAcc                                                                                                                      >  4:515025/1‑149 (MQ=255)
                             ttCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTAccc                                                                                                                     >  3:261295/1‑149 (MQ=255)
                                   aTCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAg                                                                                                               >  1:90767/1‑149 (MQ=255)
                                        cGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTaa                                                                                                          <  3:565970/149‑1 (MQ=255)
                                           aCCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑t                                                                                                      >  2:350596/1‑149 (MQ=255)
                                            ccGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑tt                                                                                                     >  3:256040/1‑149 (MQ=255)
                                             cGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑ttt                                                                                                    >  1:159082/1‑149 (MQ=255)
                                              gAAAGGTGACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑tttt                                                                                                   >  2:340685/1‑149 (MQ=255)
                                               aaaGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTc                                                                                                  <  3:110657/149‑1 (MQ=255)
                                                  ggTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTg                                                                                               >  2:68571/1‑149 (MQ=255)
                                                    ttACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCt                                                                                             >  4:592186/1‑149 (MQ=255)
                                                        aTCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCa                                                                                         >  4:114576/1‑149 (MQ=255)
                                                        aTCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCa                                                                                         >  2:208161/1‑149 (MQ=255)
                                                         tCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCaa                                                                                        <  1:491808/149‑1 (MQ=255)
                                                                cgcgATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGatatat                                                                                 <  4:256040/149‑1 (MQ=255)
                                                                   gATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAAc                                                                              >  2:406692/1‑149 (MQ=255)
                                                                      gTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTc                                                                           <  1:562773/149‑1 (MQ=255)
                                                                         cttctCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGt                                                                        <  1:514683/149‑1 (MQ=255)
                                                                          ttctCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGtt                                                                       >  2:105736/1‑149 (MQ=255)
                                                                                  tGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACa                                                               <  1:350596/149‑1 (MQ=255)
                                                                                    cGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGa                                                             <  2:195236/149‑1 (MQ=255)
                                                                                     ggTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGAc                                                            >  2:367608/1‑149 (MQ=255)
                                                                                       ttGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTc                                                                           <  1:242607/132‑1 (MQ=255)
                                                                                       ttGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTc                                                                           >  2:242607/1‑132 (MQ=255)
                                                                                         gAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACtatt                                                        >  2:597746/1‑149 (MQ=255)
                                                                                          aaaGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACtatta                                                       <  4:55828/149‑1 (MQ=255)
                                                                                             gCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCa                                                    <  3:515025/149‑1 (MQ=255)
                                                                                                    cTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCAtaggtag                                             <  2:90767/149‑1 (MQ=255)
                                                                                                    cTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCAtaggtag                                             <  1:349535/149‑1 (MQ=255)
                                                                                                       gATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTGTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGcc                                          <  1:340685/149‑1 (MQ=255)
                                                                                                              aacaaAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAg                                   <  1:208161/149‑1 (MQ=255)
                                                                                                              aacaaAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAg                                   <  3:592186/149‑1 (MQ=255)
                                                                                                                    aaGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAAc                             >  3:348395/1‑149 (MQ=255)
                                                                                                                         tCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGAt                        <  4:264655/149‑1 (MQ=255)
                                                                                                                         tCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGAt                        <  1:68571/149‑1 (MQ=255)
                                                                                                                                 gATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAAt                <  1:367608/149‑1 (MQ=255)
                                                                                                                                 gATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAAt                <  4:89422/149‑1 (MQ=255)
                                                                                                                                          tACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCAtaggta                                              <  3:609373/110‑1 (MQ=255)
                                                                                                                                          tACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCAtaggta                                              >  4:609373/1‑110 (MQ=255)
                                                                                                                                          tACGCCCTCCCGCAGGAGAGCGTACTCACTCCTTTTACCCTCACAGTTTAAGATTTTTCCTGCTTTCAAGATATATAACTTCGTTTTTTAACAAAACTATTATCTTAGGTAGCCAAAATAAGAATAACCGGATGAAAAAATGGCCAGta        >  2:274986/1‑149 (MQ=255)
                                                                                                                                             gCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAATGGGCAGtaataa    >  3:135429/1‑149 (MQ=255)
                                                                                                                                               tctcCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAATGGGCAGTAATAAtt  >  3:402390/1‑149 (MQ=255)
                                                                                                                                                    |                                                                                                                                                
TGGTGGGCTTTACCCTGATTCTGGAAAGTTTCGACATCCACGTACCGAAAGGTTACATCTACTTCGCGATGTTCTTCTCTATTGCGGTTGAAAGCCTCAACTTGATTCGCAACAAAAAGAATCCGCTCTGATACTCCGTACGCTCTCCTGCGGGAGGGCGTACTCACTCCTTTTACCCTCACAGTTTAAGA‑TTTTCCTGCTTTCAAGATATATAACGTCGGTTTATAAACAGACTATTATCATAGGTAGGCCAAATGAGGATAACCGGATGAAAAAATGGGCAGTAATAATT  >  NC_000913/2971003‑2971294

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑