Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,486,291	T→A	I25N (ATC→AAC)	lptF →	lipopolysaccharide transport system protein LptF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,486,291	0	T	A	100.0%	136.6 / NA	38	I25N (ATC→AAC)	lptF	lipopolysaccharide transport system protein LptF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (21/17);  total (21/17)

GATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGATCTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCC  >  NC_000913/4486220‑4486367                                                                        |                                                                             gATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTg                                                                     >  2:928883/1‑81 (MQ=255)  aTAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGt                                                                    >  2:928858/1‑81 (MQ=255)  aTAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGt                                                                    <  1:928822/81‑1 (MQ=255)   tAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTc                                                                   <  2:928823/81‑1 (MQ=255)     aTCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCa                                                                  <  2:928825/80‑1 (MQ=255)     aTCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCa                                                                  <  2:928824/80‑1 (MQ=255)         tAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGt                                                             >  2:928863/1‑81 (MQ=255)           aGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGt                                                             >  1:928873/1‑79 (MQ=255)                tCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAg                                                      >  1:928861/1‑81 (MQ=255)                   ggTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAt                                                   >  2:928868/1‑81 (MQ=255)                   ggTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAt                                                   >  1:928877/1‑81 (MQ=255)                   ggTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAt                                                   >  1:928869/1‑81 (MQ=255)                    gTGCGGGAGACGCT‑AAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATcc                                                 >  1:928890/1‑81 (MQ=255)                      gCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCt                                                >  2:928870/1‑81 (MQ=255)                        gggAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCg                                              >  2:928874/1‑81 (MQ=255)                         ggAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCgg                                             <  1:928826/81‑1 (MQ=255)                         ggAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCgg                                             <  1:928827/81‑1 (MQ=255)                                   aaaaGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGtt                                   >  2:928904/1‑81 (MQ=255)                                   aaaaGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGtt                                   <  1:928829/81‑1 (MQ=255)                                   aaaaGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGt                                    <  2:928828/80‑1 (MQ=255)                                     aaGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGa                                 >  2:928893/1‑81 (MQ=255)                                     aaGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGa                                 >  2:928884/1‑81 (MQ=255)                                         cAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGc                             >  2:928876/1‑81 (MQ=255)                                            cTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGat                          <  1:928830/81‑1 (MQ=255)                                              ggCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGatat                        >  1:928871/1‑81 (MQ=255)                                               gCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGata                         <  2:928831/79‑1 (MQ=255)                                                cGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTc                      <  1:928832/81‑1 (MQ=255)                                                   tACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCgg                   <  2:928833/81‑1 (MQ=255)                                                     ctctTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAGCCTCGGCGCAGCGGTTGACGGCGATATTCCGGc                  <  1:928834/80‑1 (MQ=255)                                                        ttCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAAt              >  2:928879/1‑81 (MQ=255)                                                         tCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATc             >  2:928926/1‑81 (MQ=255)                                                           aTCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTg           >  2:928872/1‑81 (MQ=255)                                                           aTCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTg           >  2:928894/1‑81 (MQ=255)                                                                gCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGt         <  2:928835/78‑1 (MQ=255)                                                                gCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTg        <  1:928836/79‑1 (MQ=255)                                                                gCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGct      >  1:928888/1‑81 (MQ=255)                                                                 cTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGctc     <  2:928837/81‑1 (MQ=255)                                                                     tGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTcc  <  2:928838/80‑1 (MQ=255)                                                                        |                                                                             GATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGATCTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCC  >  NC_000913/4486220‑4486367

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑