Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,351,590 C→T V25I (GTC→ATC)  dcuS ← sensor histidine kinase DcuS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,351,5900CT96.8% 86.3 / ‑3.7 32V25I (GTC→ATC) dcuSsensor histidine kinase DcuS
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (13/17);  total (13/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01

GCGAAGACTTTGCATATCGGTAACGACAATAAACAGCAGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGCGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGACCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGCGATAATCATACTGATGAGA  >  NC_000913/4351342‑4351831
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                    
gCGAAGACTTTGCATATCGGTAACGACAATAAACAGCAGAGCTTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGCGTCATATCACTGATTTGCTAGAAGTAAATCAGATGCACCGCCAATAGCACCGAGAACAGTACCGCACTGACCa                                                                                                                                                                                                                                                    <  1:144534/251‑1 (MQ=255)
   acgACTTTGCATATCGGAAACGACAATAAACAGCAGATCGTTGAGTTTGCGTCCGGCGTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTa                                                                                                                                                                                                                                                 <  1:222300/249‑1 (MQ=255)
           gCATATCGGTAACGACAATAAACAGCAGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACt                                                                                                                                                                                                                                         >  2:13516/1‑251 (MQ=255)
             atatCGGTAACGACAATAAACAGCAGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACtgt                                                                                                                                                                                                                                       >  1:209811/1‑251 (MQ=255)
                               aaCAGCAGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGAGCATTAAGATCACTGTGGTACTCAATTTCATCgg                                                                                                                                                                                                                     <  1:180054/251‑1 (MQ=255)
                                aCAGCCGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCgg                                                                                                                                                                                                                     >  1:218686/1‑250 (MQ=255)
                                     agATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGttt                                                                                                                                                                                                               >  2:287842/1‑251 (MQ=255)
                                            tgcgtttgcgtACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTaa                                                                                                                                                                                                         <  1:1237/250‑1 (MQ=255)
                                                                 ggATGGCCTGAATGCCACTCTGCTGCGGGTTTTTCTGGAAGCCCTGACGGATTTCTGGCGAGTCGGCGGGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCGCATCTCGTGTCATAGCACTGATTTGCGAGAAGTAAATCAGATGCACCAGCAAGAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTATTCAATGTCGGCGAACGGTTACGTATCATGCGGTGGGGCAATGAATGt                                                                                                                                                                                   <  2:276192/250‑1 (MQ=255)
                                                                  gatggccggtgggCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGtc                                                                                                                                                                                  <  2:6659/239‑1 (MQ=255)
                                                                   aTGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGCGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGtct                                                                                                                                                                                 >  1:91367/1‑251 (MQ=255)
                                                                          ggATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGc                                                                                                                                                                          <  1:172026/251‑1 (MQ=255)
                                                                           gATGCCACTCTCCGGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCt                                                                                                                                                                         <  1:74801/251‑1 (MQ=255)
                                                                                      ccTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGa                                                                                                                                                              <  2:100288/251‑1 (MQ=255)
                                                                                                                          gCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTGGTGTAACATGCGGTAGTGCAATGAATGTCTCATCAGCTTCCTTGTGTTACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTa                                                                                                                          <  1:153208/251‑1 (MQ=255)
                                                                                                                                   cGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAATCATTATCTCTGATGAGGCGGGTAATTCaaatg                                                                                                                 <  1:157711/251‑3 (MQ=255)
                                                                                                                                           cgcgCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGTGTCAGATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGa                                                                                                         <  2:179686/251‑1 (MQ=255)
                                                                                                                                                            cTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTTAAAGGGAGGAAGAAt                                                                                                       >  1:108725/1‑236 (MQ=255)
                                                                                                                                                            cTTGTTGGCTAGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAAt                                                                                                       <  2:108725/236‑1 (MQ=255)
                                                                                                                                                                      aGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCTAGAACAGTACCTCTCTGATCATTAAGATCACTGTTGTACTCAATTTCATCGGATTTTTTCGTAACATGCGTGAGGGCAATGAATGTCTCATCATCTTCCGTGTTTGACAAATTTCTTAAGCAGTATTTCTGTTGATGCTGGTTATTGAAAGTTAGTAAGAATGATTGGCTATATA‑GGGGAAGAGAct                                                                             <  1:23061/251‑1 (MQ=255)
                                                                                                                                                                      aGCCCATCTCGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGGGGAAGAATGATTGGGTATATATGGGGagggacc                                                                              >  2:17684/1‑245 (MQ=255)
                                                                                                                                                                             ctcGTGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTTAAAGGGAGTAAGAATGATTTGTCATATA‑TGGGAagaaaatcctgga                                                                       >  2:190674/1‑240 (MQ=255)
                                                                                                                                                                                  gTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGa                                                                  <  1:287842/250‑1 (MQ=255)
                                                                                                                                                                                     atatCACTGATTTGCGAGAAGTAAATCAGATGCACCCCCAATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGGAATTCAAAGGGAGTAAGAATGGTTGGGTATATA‑GGGGAAGAGACTCTGGCAACGGAAACt                                                              >  1:264382/1‑251 (MQ=255)
                                                                                                                                                                                                                          ccaATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCTAAGGGAGTAAGAATGATTGGGTATATA‑GGGGGAGAGAATCTGGCAACGGGAACAG‑CCCGAGCTGTTTGAAGG‑TTTCGGGACTATGGTtat                        >  1:178277/1‑250 (MQ=255)
                                                                                                                                                                                                                           caATAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTTAAAGGGAGTAAGAATGATTTGCTATATA‑GGGGGAGAGACTCTGGCAACGGGAAATG‑CCCGTGCTGTATGAAGA‑TTTCGGGGCTATGCTtat                        >  1:231937/1‑249 (MQ=255)
                                                                                                                                                                                                                            aaTAGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATT‑GGGGAAGATACTCTGGCAGCGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGc                     <  1:51015/251‑1 (MQ=255)
                                                                                                                                                                                                                               aGCACCGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCTGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGCGAt                  <  2:251153/251‑1 (MQ=255)
                                                                                                                                                                                                                                  aCCGAGAAGAGTACCGCACTGCTCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTCATTTCAAGGGGGGAAGAATGTTTTGCTATCTA‑GGGGGAGAGCATCCGGCCACGGGAAATG‑CCAGTGGTGTATGAAGAATTCGGGGGC‑ATGCTTATAGCGATAAt               >  2:287131/1‑251 (MQ=255)
                                                                                                                                                                                                                                    cGAGAACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAAATCAAAGGGGGGGAGAAAGATTGGGTATTTA‑TGGGGAGAGCAACTTGCAACCGAAAAAGACCTG‑GCTGTGTGAAGA‑TTCCGGGGGTATGCttctaactagaatt              >  2:10720/1‑238 (MQ=255)
                                                                                                                                                                                                                                     gagaACAGTACCGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGCGATAATCAt            <  1:223853/251‑1 (MQ=255)
                                                                                                                                                                                                                                               ccGCACTGATCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGCGAGAATCATACTGATgaga  <  1:111296/251‑1 (MQ=255)
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                    
GCGAAGACTTTGCATATCGGTAACGACAATAAACAGCAGATCGTTGCGTTTGCGTACGGCTTCCGCGATGGCCTGGATGCCACTCTCCTGCGGTTTTTTCTGCAAGCCCTGACGGATTTCCGGCGAGTCGGCGAGGGTACGCGCCACTGCCAGTGCCTTGTTGGCTAGCCCATCTCGCGTCATATCACTGATTTGCGAGAAGTAAATCAGATGCACCACCAATAGCACCGAGAACAGTACCGCACTGACCATTAAGATCACTGTGGTACTCAATTTCATCGGACGTTTGCGTAACATGCGGTAGGGCAATGAATGTCTCATCAGCTTCCTTGTGTGACAAATTTCTTAAGCATTATCTCTGATGAGGCGGGTAATTCAAAGGGAGTAAGAATGATTGGCTATATA‑GGGGAAGAGACTCTGGCAACGGAAACTG‑CCAGTGCTGTATGAAGA‑TTCCGGGGCTATGCTTATAGCGATAATCATACTGATGAGA  >  NC_000913/4351342‑4351831

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑