Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,459,139	Δ1 bp	coding (1181/1353 nt)	pmbA →	metalloprotease PmbA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,459,137	0	G	.	100.0%	125.0 / NA	30	coding (1179/1353 nt)	pmbA	metalloprotease PmbA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (12/18);  total (12/18)

CACCGGGCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGCGGGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAATT  >  NC_000913/4459062‑4459201                                                                            |                                                                 cACCGGGCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGCggcttc                                                             <  1:852549/81‑5 (MQ=255)   cccggCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTg                                                          <  2:852549/78‑1 (MQ=255)     gggCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTggg                                                        >  1:852615/1‑81 (MQ=255)     gggCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTggg                                                        >  1:852599/1‑81 (MQ=255)      ggCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGt                                                       <  2:852550/81‑1 (MQ=255)           gtggtgACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTagag                                                   >  1:852602/1‑80 (MQ=255)           gtggtgACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAgaga                                                  <  1:852552/81‑1 (MQ=255)                 aCGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGc                                             >  1:852622/1‑80 (MQ=255)                 aCGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGc                                             <  1:852553/80‑1 (MQ=255)                   ggAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGa                                           >  2:852612/1‑80 (MQ=255)                          aTGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAg                                    >  2:852610/1‑80 (MQ=255)                             ggCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATc                                <  2:852553/81‑1 (MQ=255)                                cAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCgg                             >  2:852604/1‑81 (MQ=255)                                 aGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGt                            <  1:852555/81‑1 (MQ=255)                                  gggCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGt                            >  1:852609/1‑80 (MQ=255)                                   ggCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGa                          <  1:852557/81‑1 (MQ=255)                                   agCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGa                          <  2:852555/80‑1 (MQ=255)                                     cGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGc                        <  2:852558/81‑1 (MQ=255)                                     cGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGc                        <  1:852558/81‑1 (MQ=255)                                        gAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGa                      >  2:852611/1‑80 (MQ=255)                                                ttACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCAt             <  2:852559/81‑1 (MQ=255)                                                 tACCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATc            >  2:852600/1‑81 (MQ=255)                                                  aCCGGTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCg           >  2:852616/1‑81 (MQ=255)                                                      gTGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAgg       <  1:852561/81‑1 (MQ=255)                                                       tGATTATTCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGt      <  1:852562/81‑1 (MQ=255)                                                         attattCCCGTGGTGCAGC‑GGCTTCTGGGTGGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTa     <  2:852563/80‑1 (MQ=255)                                                         attattCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTaa    <  1:852563/81‑1 (MQ=255)                                                          ttattCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAAt   <  2:852564/81‑1 (MQ=255)                                                           tattCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAAtt  >  2:852625/1‑81 (MQ=255)                                                            attCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAAtt  <  2:852566/80‑1 (MQ=255)                                                            attCCCGTGGTGCAGC‑GGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAAtt  <  2:852565/80‑1 (MQ=255)                                                                            |                                                                 CACCGGGCTGGTGGTGACGGAATTGATGGGCCAGGGCGTGAGTGCCATTACCGGTGATTATTCCCGTGGTGCAGCGGGCTTCTGGGTAGAGAATGGCGAAATTCAGTATCCGGTGAGCGAAATCACCATCGCAGGTAATT  >  NC_000913/4459062‑4459201

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑