Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,040,801	T→C	L107L (TTA→CTA)	msrQ →	periplasmic protein‑L‑methionine sulfoxide reductase heme binding subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,040,801	0	T	C	100.0%	81.1 / NA	21	L107L (TTA→CTA)	msrQ	periplasmic protein‑L‑methionine sulfoxide reductase heme binding subunit
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/11);  total (10/11)

AACAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGTTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAACGTTAGGTA  >  NC_000913/2040758‑2040846                                            |                                              aaCAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGctatt                                           <  1:1258258/48‑1 (MQ=255)  aCAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAg                                         >  1:2105666/1‑49 (MQ=255)  aCAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAg                                         <  1:1352241/49‑1 (MQ=255)   cAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAgg                                        >  1:1011822/1‑49 (MQ=255)      gTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTaa                                     <  1:1049775/49‑1 (MQ=255)      gTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTaa                                     <  1:735594/49‑1 (MQ=255)        tACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAg                                    >  1:2089722/1‑48 (MQ=255)          cGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGa                                  <  1:2051172/48‑1 (MQ=255)           gCATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGt                                >  1:807363/1‑49 (MQ=255)            cATTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGtt                               <  1:1125431/49‑1 (MQ=255)             aTTGCTGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGtt                               >  1:133512/1‑48 (MQ=255)                  tGGAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTAc                         >  1:1302001/1‑49 (MQ=255)                   ggAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTAcc                        >  1:1763916/1‑49 (MQ=255)                    gAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTAccc                       <  1:1998487/49‑1 (MQ=255)                    gAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTAc                         <  1:1200663/47‑1 (MQ=255)                    gAGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTAc                         <  1:1391531/47‑1 (MQ=255)                     aGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTACCCg                      <  1:1069518/49‑1 (MQ=255)                     aGCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTACCCg                      >  1:1944843/1‑49 (MQ=255)                      gCTGGGCGTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTACCCgg                     <  1:1686096/49‑1 (MQ=255)                             gTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTACCCGGCCTTAtt              >  1:556993/1‑49 (MQ=255)                             gTGAATAATCTGGCGCTATTAGGTAAGGAGTTAATTACCCGGCCTTAtt              >  1:756359/1‑49 (MQ=255)                                 ataatCTGGCGCTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAAc          <  1:1787519/49‑1 (MQ=255)                                         gcgcTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAACGTTAg     <  1:1639883/46‑1 (MQ=255)                                         gcgcTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAACGTTAg     <  1:1186637/46‑1 (MQ=255)                                         gcgcTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAACGTTAGGta  <  1:99090/49‑1 (MQ=255)                                            |                                              AACAAGTTACGCATTGCTGGAGCTGGGCGTGAATAATCTGGCGTTATTAGGTAAGGAGTTAATTACCCGGCCTTATTTAACGTTAGGTA  >  NC_000913/2040758‑2040846

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑