Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,077,659	C→T	A401T (GCA→ACA)	cmtA ←	mannitol‑specific PTS enzyme IICB component CmtA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,077,659	0	C	T	100.0%	97.3 / NA	28	A401T (GCA→ACA)	cmtA	mannitol‑specific PTS enzyme IICB component CmtA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (17/11);  total (17/11)

GGCATGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGCCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCGCATC  >  NC_000913/3077591‑3077728                                                                     |                                                                      ggCATGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCttt                                                           >  2:534560/1‑81 (MQ=255)  gCATGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCttt                                                           <  2:534536/80‑1 (MQ=255)  gCATGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCttt                                                           <  2:534535/80‑1 (MQ=255)    aTGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTc                                                        <  2:534537/81‑1 (MQ=255)     tGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTc                                                        >  2:534578/1‑80 (MQ=255)       aGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAg                                                     <  2:534538/81‑1 (MQ=255)         tAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGc                                                   >  2:534568/1‑81 (MQ=255)          aaCGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCg                                                  >  2:534599/1‑81 (MQ=255)               cgaTATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTAc                                             <  2:534539/81‑1 (MQ=255)                 atatCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACg                                            >  1:534566/1‑80 (MQ=255)                      cgcatccgcaGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAggt                                      >  2:534588/1‑81 (MQ=255)                       gcatccgcaGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAggtg                                     <  2:534540/81‑1 (MQ=255)                          tccgcaGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTc                                  >  1:534569/1‑81 (MQ=255)                           ccgcaGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTcg                                 >  2:534572/1‑81 (MQ=255)                            cgcaGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTcgc                                <  2:534541/81‑1 (MQ=255)                              caGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCgcgc                              >  1:534584/1‑81 (MQ=255)                               aGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGcc                             >  1:534594/1‑81 (MQ=255)                               aGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGcc                             <  1:534542/81‑1 (MQ=255)                                      ttttCTATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCa                      <  2:534543/81‑1 (MQ=255)                                           tATGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTg                   >  1:534577/1‑79 (MQ=255)                                            aTGGCGTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAg                >  2:534573/1‑81 (MQ=255)                                                 gTAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCAt           >  1:534580/1‑81 (MQ=255)                                                  tAATGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATc          >  2:534574/1‑81 (MQ=255)                                                    aTGTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATcc         <  1:762597/80‑1 (MQ=255)                                                      gTTTTACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCg      >  2:534581/1‑81 (MQ=255)                                                       ttttACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCg      <  2:534544/80‑1 (MQ=255)                                                        tttACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCGCa    >  1:534570/1‑81 (MQ=255)                                                          tACTTCAATTGTCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCGCATc  >  1:534571/1‑81 (MQ=255)                                                                     |                                                                      GGCATGAGTAACGACGATATCCGCATCCGCAGGCACGTTTTCTATGGCGTAATGTTTTACTTCAATTGCCAGCCCCGCTTTTTCCAGGCGTTTACGGAAGGTGGTCGCGCCCATCGCACTGGAGCCCATCCCCGCATC  >  NC_000913/3077591‑3077728

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑