Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,452,099	T→G	K63T (AAA→ACA)	rplD ←	50S ribosomal subunit protein L4

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,452,099	0	T	G	100.0%	85.5 / NA	27	K63T (AAA→ACA)	rplD	50S ribosomal subunit protein L4
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (15/12);  total (15/12)

CCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACGAGT  >  NC_000913/3452042‑3452160                                                          |                                                              ccaccaGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGgcg                                                        >  1:1359160/1‑65 (MQ=255)      aGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCcgcg                                                   >  1:2855260/1‑65 (MQ=255)      aGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACg                                                   >  1:2406025/1‑65 (MQ=255)      aGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACg                                                   <  1:1598958/65‑1 (MQ=255)           gCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGGGCCTGCCTGGCGCCACCGtttt                                              >  1:2335333/1‑65 (MQ=255)                 tCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCCCGGTTTTTTACCg                                        >  1:2046698/1‑65 (MQ=255)                 tCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTAcct                                        >  1:1994665/1‑64 (MQ=255)                 tCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCg                                        >  1:1121295/1‑65 (MQ=255)                 tCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCg                                        >  1:2057806/1‑65 (MQ=255)                     gCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAAc                                    >  1:1500449/1‑65 (MQ=255)                        tttGGTAGAACCAGAGCGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAg                                 <  1:810024/64‑1 (MQ=255)                        ctTGATATACCCAGAGCGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAg                                 <  1:1663342/65‑1 (MQ=255)                        ctTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAg                                 <  1:3328350/65‑1 (MQ=255)                        ctTGATAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAg                                 <  1:2888281/65‑1 (MQ=255)                        ctTGATACCACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAg                                 <  1:1850786/65‑1 (MQ=255)                            aTAGAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGAAACCAGTTAc                             <  1:2907103/65‑1 (MQ=255)                             tAGAGCCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACt                            <  1:1074824/65‑1 (MQ=255)                             tAGAACCAGAACGCGCCCGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTGCt                            <  1:1714913/65‑1 (MQ=255)                               gAACCAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTc                          >  1:2901984/1‑65 (MQ=255)                                  ccAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGc                       >  1:1605288/1‑65 (MQ=255)                                  ccAGAACGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGc                       <  1:2592867/65‑1 (MQ=255)                                      aaCGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGa                   >  1:2345673/1‑65 (MQ=255)                                      aaCGCGCACGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGa                   >  1:898319/1‑65 (MQ=255)                                       aCGCGCCCGGCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAg                  <  1:1127586/65‑1 (MQ=255)                                               ggCCGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGa          <  1:2198055/65‑1 (MQ=255)                                               ggCCGGTGCCTGTCTGACGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGa          <  1:581020/65‑1 (MQ=255)                                                 ccGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGc        >  1:1907823/1‑65 (MQ=255)                                                  cGGTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCa       <  1:1721994/65‑1 (MQ=255)                                                    gTGCCTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACg     <  1:812168/65‑1 (MQ=255)                                                       ccTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACGAgc  >  1:1843304/1‑64 (MQ=255)                                                       ccTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACGAGt  >  1:1218999/1‑65 (MQ=255)                                                       ccTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACGAGt  >  1:2037780/1‑65 (MQ=255)                                                       ccTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGGCTTCTGATCACGAGt  >  1:2774557/1‑65 (MQ=255)                                                       ccTGTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTAAGAACGGGCTTTTTGAGCAGGAGt  >  1:2151149/1‑65 (MQ=255)                                                          |                                                              CCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGTCTTCTGAGCACGAGT  >  NC_000913/3452042‑3452160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑