Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,344,248	T→C	V102A (GTA→GCA)	lptB →	lipopolysaccharide transport system ATP binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,344,248	0	T	C	100.0%	124.7 / NA	35	V102A (GTA→GCA)	lptB	lipopolysaccharide transport system ATP binding protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/23);  total (12/23)

ATCATTATTGATGATGACGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGTACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCACTCTCCGGGGGTGAACGTCG  >  NC_000913/3344121‑3344374                                                                                                                                 |                                                                                                                               atcatTATTGATGATGACGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGc                                                                                                                           >  2:395065/1‑133 (MQ=255)     ttattGATGATGACGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAAt                                                                                                                       <  1:584364/133‑1 (MQ=255)            tgatgaCGCTATCAGTCTCCTGTCTCTGCAAGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTgac                                                                                                                <  1:177212/133‑1 (MQ=255)            tgatgaCGATATCAGACTACTGCCTCTGCAGGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTgac                                                                                                                <  1:258490/133‑1 (MQ=255)             gatgaCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTgacg                                                                                                               >  2:504613/1‑133 (MQ=255)              atgaCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTgacga                                                                                                              >  2:250836/1‑133 (MQ=255)               tgaCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTgacgac                                                                                                             >  2:440348/1‑133 (MQ=255)                gaCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACt                                                                                                            >  2:48934/1‑133 (MQ=255)                gaCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACt                                                                                                            >  2:404685/1‑133 (MQ=255)                 aCGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACtt                                                                                                           <  2:502375/133‑1 (MQ=255)                          gTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGa                                                                                                  <  1:440348/133‑1 (MQ=255)                          gTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGa                                                                                                  <  2:94910/133‑1 (MQ=255)                           tCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaa                                                                                                 >  1:60254/1‑133 (MQ=255)                            ctgctgCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  2:487847/133‑1 (MQ=255)                            ctgctgCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  1:504613/133‑1 (MQ=255)                            ctgctgCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  1:250836/133‑1 (MQ=255)                            ctgctgCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTCCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  1:121376/133‑1 (MQ=255)                            ctgctgCCGCTGCATACATGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  1:288154/133‑1 (MQ=255)                             tgctgcCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAACCCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGaac                                                                                                <  1:412878/133‑1 (MQ=255)                             tgctgcCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCGCTGCAAATTCGTGACGACTTGTCTGCTGaaca                                                                                               >  2:185311/1‑133 (MQ=255)                                                  cgcgcCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGa                                                                          <  2:330217/133‑1 (MQ=255)                                                  cgcgcCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGa                                                                          >  2:394862/1‑133 (MQ=255)                                                            tATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGaa                                                                <  1:404685/133‑1 (MQ=255)                                                                  cTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGttt                                                          <  2:584828/133‑1 (MQ=255)                                                                   tATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTc                                                         <  1:395065/133‑1 (MQ=255)                                                                     tCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTcac                                                       >  2:7831/1‑133 (MQ=255)                                                                        gCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACAtt                                                    <  1:374940/133‑1 (MQ=255)                                                                                   ccTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCg                                         >  1:440484/1‑133 (MQ=255)                                                                                      ccATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGa                                      <  2:394464/133‑1 (MQ=255)                                                                                      ccATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGa                                      <  1:149285/133‑1 (MQ=255)                                                                                               gTCGCCTCATAGTTTTCGATAA‑CGCGATGGCGGCACTGCAATTTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATggg                             <  2:285959/133‑1 (MQ=255)                                                                                                      cAGCGTTTACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCa                      <  1:520620/133‑1 (MQ=255)                                                                                                             tACGATAA‑CCTGATGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCACTCTCCg               >  2:602641/1‑133 (MQ=255)                                                                                                                           tGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCACTCTCCGGGGGTGAACGTCg  <  1:48934/133‑1 (MQ=255)                                                                                                                           tGGCGGCACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCACTCTCCGGGGGTGAACGTCg  <  2:63098/133‑1 (MQ=255)                                                                                                                                 |                                                                                                                               ATCATTATTGATGATGACGATATCAGTCTGCTGCCTCTGCATGCACGCGCGCGCCGCGGTATCGGCTATCTGCCACAGGAAGCCTCCATTTTCCGTCGCCTCAGCGTTTACGATAA‑CCTGATGGCGGTACTGCAAATTCGTGACGACTTGTCTGCTGAACAACGTGAAGACCGCGCGAACGAGCTGATGGAAGAGTTTCACATTGAGCACCTGCGTGACAGCATGGGGCAGTCACTCTCCGGGGGTGAACGTCG  >  NC_000913/3344121‑3344374

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑