Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,213,803	T→C	S253P (TCT→CCT)	rpoD →	RNA polymerase, sigma 70 (sigma D) factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,213,803	0	T	C	100.0%	128.1 / NA	33	S253P (TCT→CCT)	rpoD	RNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (13/20);  total (13/20)

GAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGA  >  NC_000913/3213757‑3213846                                               |                                            gAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCt                                           >  1:1087955/1‑49 (MQ=255)     ggTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAg                                       <  1:867264/49‑1 (MQ=255)         gCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTAtt                                   <  1:930878/49‑1 (MQ=255)         gCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTAtt                                   <  1:267155/49‑1 (MQ=255)         gCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTAtt                                   <  1:1657063/49‑1 (MQ=255)          cAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTc                                  <  1:2029524/49‑1 (MQ=255)               aCGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACa                             <  1:1785452/49‑1 (MQ=255)                cGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAg                            <  1:987375/49‑1 (MQ=255)                cGCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAg                            <  1:1465129/49‑1 (MQ=255)                 gCTACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGt                           >  1:230130/1‑49 (MQ=255)                   tACCGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTc                         >  1:223215/1‑49 (MQ=255)                     ccGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTcc                        <  1:1837321/48‑1 (MQ=255)                     ccGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTcc                        <  1:2055049/48‑1 (MQ=255)                     ccGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTc                         <  1:1885550/47‑1 (MQ=255)                      cGCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGc                      <  1:1336529/49‑1 (MQ=255)                       gCTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGcc                     <  1:1779033/49‑1 (MQ=255)                        cTCAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCt                    <  1:118605/49‑1 (MQ=255)                          cAGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTgg                  >  1:1094125/1‑49 (MQ=255)                           aGGAAGAGATCTTGAAACTGCCGGAAGTATTCAAACAGTTCCGCCTGGt                 <  1:1668963/49‑1 (MQ=38)                           aGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTgg                  <  1:2048566/48‑1 (MQ=255)                           aGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGt                 <  1:577594/49‑1 (MQ=255)                           aGGAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGt                 >  1:583651/1‑49 (MQ=255)                            ggAAGAGATCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTg                <  1:1702676/49‑1 (MQ=255)                                 agaTCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCg             >  1:839118/1‑47 (MQ=255)                                  gaTCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAg          >  1:877648/1‑49 (MQ=255)                                  gaTCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAg          <  1:953692/49‑1 (MQ=255)                                   aTCCTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGc         <  1:1261454/49‑1 (MQ=255)                                     ccTGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAg       >  1:438838/1‑49 (MQ=255)                                       tGAAACTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGtt     >  1:181502/1‑49 (MQ=255)                                         aaaCTGCCTGAAGTATTCAAACGGTTCCGCCAGGTGCCGAAGCAGttt    >  1:207972/1‑48 (MQ=37)                                         aaaCTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGttt    >  1:242588/1‑48 (MQ=255)                                         aaaCTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGttt    >  1:1712253/1‑48 (MQ=255)                                          aaCTGCCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGa  >  1:1661710/1‑49 (MQ=255)                                               |                                            GAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGA  >  NC_000913/3213757‑3213846

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑