Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,213,490	C→T	Y148Y (TAC→TAT)	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	3,213,490	0	C	T	100.0%	157.4 / NA	45	Y148Y (TAC→TAT)	rpoD	RNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (26/19);  total (26/19)

CGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTACGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGA  >  NC_000913/3213353‑3213621                                                                                                                                          |                                                                                                                                    cGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGa                                                                                                                                   >  1:863765/1‑140 (MQ=255)  gTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGAt                                                                                                                                  >  1:109213/1‑140 (MQ=255)  gTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGAt                                                                                                                                  <  2:178722/140‑1 (MQ=255)    gAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCg                                                                                                                                >  1:316806/1‑140 (MQ=255)    gAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCg                                                                                                                                >  1:370127/1‑140 (MQ=255)          ggCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGa                                                                                                                          >  1:568278/1‑140 (MQ=255)            cACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACAAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAg                                                                                                                        <  1:402641/140‑1 (MQ=255)                         ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           <  2:318893/140‑1 (MQ=255)                         ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           <  2:568278/140‑1 (MQ=255)                         ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           >  1:293702/1‑140 (MQ=255)                          tGACCCGCGAAGGCGATATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGt                                                                                                          <  2:774721/140‑1 (MQ=255)                            aCCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCt                                                                                                        >  2:618353/1‑140 (MQ=255)                                   aaGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGAt                                                                                                 >  1:766343/1‑140 (MQ=255)                                    aGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATc                                                                                                <  2:316806/140‑1 (MQ=255)                                    aGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATc                                                                                                <  2:370127/140‑1 (MQ=255)                                            ttGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCAcc                                                                                        >  1:299283/1‑140 (MQ=255)                                               aCATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGc                                                                                     >  2:123303/1‑140 (MQ=255)                                                  tCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCttt                                                                                  >  1:610052/1‑140 (MQ=255)                                                   cGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTttg                                                                                 <  1:123303/140‑1 (MQ=255)                                                           gTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCg                                                                         <  1:643776/140‑1 (MQ=255)                                                              ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      >  2:610127/1‑140 (MQ=255)                                                              ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      <  1:618353/140‑1 (MQ=255)                                                              ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      >  1:3658/1‑140 (MQ=255)                                                               tGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACg                                                                     <  2:610052/140‑1 (MQ=255)                                                                   gACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTATTGACCCGAACGCaga                                                                 >  2:776121/1‑140 (MQ=255)                                                                    aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                >  2:51512/1‑140 (MQ=255)                                                                    aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                >  2:578419/1‑140 (MQ=255)                                                                    aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                <  2:3658/140‑1 (MQ=255)                                                                        gATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaagaag                                                            >  2:153924/1‑140 (MQ=255)                                                                          tCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGAt                                                          <  1:153924/140‑1 (MQ=255)                                                                             aCCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTg                                                       >  2:526928/1‑140 (MQ=255)                                                                                  gTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCAcc                                                  >  1:733227/1‑140 (MQ=255)                                                                                     cAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTAc                                               <  1:776121/140‑1 (MQ=255)                                                                                              gTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGTTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCa                                      <  1:707415/140‑1 (MQ=255)                                                                                                        atCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCt                            >  2:554832/1‑140 (MQ=255)                                                                                                         tCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTg                           >  2:584282/1‑140 (MQ=255)                                                                                                             gAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCCCCGGTTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCt                       <  2:324868/140‑1 (MQ=255)                                                                                                                   aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTc                             >  1:751688/1‑128 (MQ=255)                                                                                                                   aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTc                             <  2:751688/128‑1 (MQ=255)                                                                                                                   aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  2:355177/1‑140 (MQ=255)                                                                                                                   aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  1:452971/1‑140 (MQ=255)                                                                                                                   aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  1:623017/1‑140 (MQ=255)                                                                                                                     cACCTATCTGCTGGAACAGTATGATGGTGTTGAAGCAGAAGAGGCGCGTCTGCCCGATCTGACCCCCGGCTTTGTTGCCCCGAACGCAAAAGAAGATCTGGCCCCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAgg               <  2:863765/140‑1 (MQ=255)                                                                                                                     cACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCCCCGGCTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCCCCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAgg               <  2:293702/140‑1 (MQ=255)                                                                                                                      cccTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGACCCCCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGa              <  2:408463/139‑1 (MQ=255)                                                                                                                               ctgGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTAACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGa     <  2:766343/140‑1 (MQ=255)                                                                                                                                tgGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGAc    >  1:695564/1‑140 (MQ=255)                                                                                                                                  gAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGa  <  1:554832/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                    CGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTACGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGA  >  NC_000913/3213353‑3213621

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑