Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,877,816	T→C	pseudogene (408/1482 nt)	yeaV →	BCCT family transporter YeaV

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,877,816	0	T	C	100.0%	91.8 / NA	28	pseudogene (408/1482 nt)	yeaV	BCCT family transporter YeaV
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (14/14);  total (14/14)

GGCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCT  >  NZ_CP009273/1877729‑1877893                                                                                        |                                                                              ggCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCg                                                                             >  1:323350/1‑90 (MQ=255) ggCCTCATTAATCATGGCTTATCACTTTCATGCGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCg                                                                             >  2:559708/1‑90 (MQ=255)   ccTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGcc                                                                           <  2:151420/90‑1 (MQ=255)         tAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAg                                                                     <  1:347331/90‑1 (MQ=255)         tAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAg                                                                     <  2:113890/90‑1 (MQ=255)                ggCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATg                                                              >  1:78812/1‑90 (MQ=255)                    tATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCAt                                                               >  1:381937/1‑85 (MQ=255)                    tATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCAt                                                               <  2:381937/85‑1 (MQ=255)                          tttCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTg                                                    >  2:215219/1‑90 (MQ=255)                            tCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGt                                                  <  2:247347/90‑1 (MQ=255)                                  gCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGAttt                                            >  2:426379/1‑90 (MQ=255)                                     gAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGAt                                         <  2:376472/90‑1 (MQ=255)                                          aCAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTcc                                    <  2:323350/90‑1 (MQ=255)                                             aaGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGa                                 <  1:23959/90‑1 (MQ=255)                                               ggTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATc                               >  1:655880/1‑90 (MQ=255)                                               ggTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATc                               <  1:553995/90‑1 (MQ=255)                                                   tGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCa                           >  1:158582/1‑90 (MQ=255)                                                         tttCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCg                     >  2:230244/1‑90 (MQ=255)                                                          ttCCGGCATTATTGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCgg                    <  2:260014/90‑1 (MQ=255)                                                                 attattGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGcc                            >  1:261629/1‑75 (MQ=255)                                                                 attattGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGcc                            <  2:261629/75‑1 (MQ=255)                                                                    attGCTGCTATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATCTGATGTTCCTGATCGCCACTGTCGGCGCACTGAcc          <  2:278156/90‑1 (MQ=255)                                                                         tgctATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTc     >  1:201961/1‑90 (MQ=255)                                                                            tATTACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCt  >  1:344351/1‑90 (MQ=255)                                                                               tACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCAtt       <  2:216338/82‑1 (MQ=255)                                                                               tACCGGCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCAtt       >  1:216338/1‑82 (MQ=255)                                                                                    gCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTg                                  >  1:631828/1‑50 (MQ=255)                                                                                    gCGTCCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTg                                  <  2:631828/50‑1 (MQ=255)                                                                                        |                                                                              GGCCTCATTAATCATGGCTTATCACTTTCATGTGCGGAAAAACAAAGGTCTGAGCCTTTCCGGCATTATTGCTGCTATTACCGGCGTTCGCCCGCAAGGCCCATGGGGAAAACTGGTCGATTTGATGTTCCTGATCGCCACTGTCGGCGCACTGACCATTTCCCT  >  NZ_CP009273/1877729‑1877893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑