Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,632,398	A→C	Q466P (CAG→CCG)	pitA →	inorganic phosphate transporter PitA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,632,398	0	A	C	100.0%	120.9 / NA	33	Q466P (CAG→CCG)	pitA	inorganic phosphate transporter PitA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (14/19);  total (14/19)

ACCGGGATGCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCT  >  NZ_CP009273/3632319‑3632482                                                                                |                                                                                     aCCGGGATGCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAAcc                                                                            >  2:29929/1‑90 (MQ=255)      gATGCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGAc                                                                       <  2:406479/90‑1 (MQ=255)       aTGCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGAcc                                                                      <  2:150499/90‑1 (MQ=255)         gCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAg                                                                    <  1:186462/90‑1 (MQ=255)         gCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAg                                                                    >  2:37756/1‑90 (MQ=255)            ggTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCAt                                                                 <  1:271611/90‑1 (MQ=255)            ggTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCAt                                                                 <  2:289672/90‑1 (MQ=255)               ttCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCt                                                              >  2:311010/1‑90 (MQ=255)                  cACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGAt                                                           <  1:37756/90‑1 (MQ=255)                  cACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGAt                                                           <  1:380650/90‑1 (MQ=255)                  cACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGAt                                                           <  1:50055/90‑1 (MQ=255)                        tCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTg                                                     <  2:17206/90‑1 (MQ=255)                              aCTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGtt                                               >  1:208070/1‑90 (MQ=255)                                tctcCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTa                                             >  2:128769/1‑90 (MQ=255)                                  tcctcTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTAcc                                           <  2:252092/90‑1 (MQ=255)                                        tctGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTg                                                     >  1:309823/1‑74 (MQ=255)                                        tctGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTg                                                     <  2:309823/74‑1 (MQ=255)                                           gTCGCGGGGACGATGGTGGTAGATGGTGACGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCt                                  >  2:306789/1‑90 (MQ=255)                                             cgcgGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGc                                <  1:592829/90‑1 (MQ=255)                                             cgcgGGGACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGc                                <  2:327292/90‑1 (MQ=255)                                                ggggACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGt                             >  2:500738/1‑90 (MQ=255)                                                ggggACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGt                             >  1:274636/1‑90 (MQ=255)                                                  ggACGATGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTAc                           <  1:19053/90‑1 (MQ=255)                                                       aTGGTGGTAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCtt                      <  2:236057/90‑1 (MQ=255)                                                           tggtAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCcg                  >  2:515527/1‑90 (MQ=255)                                                             gtAGATGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCcggc                >  2:606824/1‑90 (MQ=255)                                                                 aTGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGc            <  1:34078/90‑1 (MQ=255)                                                                 aTGGTGGCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGc            >  1:214059/1‑90 (MQ=255)                                                                   ggtggCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTg          >  2:111094/1‑90 (MQ=255)                                                                    gtggCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCcggcg               >  2:411806/1‑84 (MQ=255)                                                                    gtggCGGCTTACCGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCcggcg               <  1:411806/84‑1 (MQ=255)                                                                     tggCGGCTTACCGCGTAAAACCGTGACGAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTa        <  1:35141/90‑1 (MQ=255)                                                                           cTTACCGCGTAAAACCGTGACCTGCATTCTGATGGGCTGGGTGTTTACCCTTCCGGCTGCGGTTCTGCTTTCCGGCGGGCTGTACTGGct  <  1:147620/90‑1 (MQ=255)                                                                                |                                                                                     ACCGGGATGCCGGTTTCCACTACTCACGTACTCTCCTCTTCTGTCGCGGGGACGATGGTGGTAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCT  >  NZ_CP009273/3632319‑3632482

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑