Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,109,428	G→A	L53L (CTA→TTA)	rfbX ←	polyisoprenol‑linked O16‑antigen repeat unit flippase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,109,428	0	G	A	100.0%	100.0 / NA	29	L53L (CTA→TTA)	rfbX	polyisoprenol‑linked O16‑antigen repeat unit flippase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (13/16);  total (13/16)

AGATTAAATTCCCGACTAATGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAGCATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGATAAGCTCATCTAACGTAAAGAGCCTTTCATCTTTTGGCGAAAGGATTAACCCTGATGTTTGGGGCC  >  NC_000913/2109188‑2109669                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                  aGATTAAATTCCCGACTAATGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGACAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCt                                                                                                                                                                                                                                         <  2:11182/251‑1 (MQ=255)   aTTAAATTCCCGACTAATGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCGTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTg                                                                                                                                                                                                                                       <  1:235003/251‑1 (MQ=255)    ttAAATTCCCGACTAATGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTgg                                                                                                                                                                                                                                      >  2:326467/1‑251 (MQ=255)                  aaTGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCAGATATAACATAGTCGCTTGGCAAAAACCGAat                                                                                                                                                                                                                          <  1:16693/249‑1 (MQ=255)                         gAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATTCCGaaa                                                                                                                                                                                                                 <  1:266529/251‑1 (MQ=255)                                cGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTc                                                                                                                                                                                                            >  2:320572/1‑249 (MQ=255)                                                                 aGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTa                                                                                                                                                                          >  1:371910/1‑250 (MQ=255)                                                                       aagcaagGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATg                                                                                                                                                                   <  1:137278/251‑1 (MQ=255)                                                                       aagcaagGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATg                                                                                                                                                                   <  1:212410/251‑1 (MQ=255)                                                                                     aCGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAAGGGTAAAAGATAATTg                                                                                                                                                     <  1:320572/251‑1 (MQ=255)                                                                                                  cAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACg                                                                                                                                         <  1:231716/250‑1 (MQ=255)                                                                                                    aTGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACa                                                                                                                                      <  1:134514/251‑1 (MQ=255)                                                                                                        aaTGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGcc                                                                                                                                   >  1:71971/1‑250 (MQ=255)                                                                                                              gATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGatat                                                                                                                             >  1:140249/1‑250 (MQ=255)                                                                                                                 aaGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGAtatata                                                                                                                          >  1:309721/1‑250 (MQ=255)                                                                                                                            ttGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGAACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTcttctt                                                                                                              >  2:97278/1‑251 (MQ=255)                                                                                                                                    atCACCGCCCAAAAAAATAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAATCATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGTAAATGTAGGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAtata                                                                                                       <  1:72689/251‑1 (MQ=255)                                                                                                                                    atCACCGCCCAAAAAAATAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATa                                                                                                       <  1:72681/251‑1 (MQ=255)                                                                                                                                        ccGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAAttt                                                                                                   >  2:130564/1‑250 (MQ=255)                                                                                                                                           cccAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTc                                                                                               <  1:236212/251‑1 (MQ=255)                                                                                                                                            ccAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCg                                                                                              <  1:124002/251‑1 (MQ=255)                                                                                                                                                   a‑TAGACGTTCCTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGCAAACATATTCAACAAACATTATCATATATAACATAGTAGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCAt                                                                                       >  1:244971/1‑251 (MQ=255)                                                                                                                                                     tAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGCTAATTTATTCGTATTCATg                                                                                      >  1:321854/1‑251 (MQ=255)                                                                                                                                                        aCGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCGTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCaa                                                                                   <  1:188351/251‑1 (MQ=255)                                                                                                                                                                         cTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAAACTTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGAGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGAt                                                                   >  1:229936/1‑250 (MQ=255)                                                                                                                                                                                     ttGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGATAAGCTCATCTaa                                                       <  2:302580/250‑1 (MQ=255)                                                                                                                                                                                                                  gAAACCATATTAAACAAACTTTATCATATATAACATAGTCGCTTGGCAAAAACCGACTATACCGAAATTTTCAAGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGATAAGCTCATCTAACGTAAAGAGCCTTTCATCTTTTGGCGaa                           >  2:22019/1‑249 (MQ=255)                                                                                                                                                                                                                                  aacaTTATCATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGTAATTAATTTTAATCTGATAAGCTCATCTAACGTAAAGAGCCTTTCATCTTTTGGCGAAAGGATTAACCCTGATGtt         <  2:179530/251‑1 (MQ=255)                                                                                                                                                                                                                                          cATATATAACATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGATAAGCTCATCTAACGTAAAGAGCCTTTCATCTTTTGGCGAAAGGATTAACCCTGATGTTTGGGGcc  >  2:73673/1‑250 (MQ=255)                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                  AGATTAAATTCCCGACTAATGCAGGAACAAACGACCATATAATTACGGCATGCTTGTTATATTCAGGAACAAGCAAGGTCATCGACGTTAAGAAAATCAATGTAATGACGATAAGAACTATTTTTGAAAATATCACCGCCCAAAAAA‑TAGACGTTACTTTATCTTTACTATCTGCTGCTTTGGCAATACTCTGAGTTGCTGTGAGATTGAAACCATATTCAACAAACATTATCATATATAGCATAGTCGCTTGGCAAAAACCGAATATACCGAAATTTTCAGGACCAAGTGTTCTTACAAGATATGGAAATGTAAGCAATGGTAAAAGATAATTGCTACCTTGAACGACAGCCAGATATATAACGTTTCTTCTTAAAGATAATTTATTCGTATTCATGCAATTAATTTTAATCTGATAAGCTCATCTAACGTAAAGAGCCTTTCATCTTTTGGCGAAAGGATTAACCCTGATGTTTGGGGCC  >  NC_000913/2109188‑2109669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑