Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,242,167	(T)7→8	coding (914/915 nt)	ldcA ←	murein L,D‑carboxypeptidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,242,160	1	.	T	100.0%	62.1 / NA	18	intergenic (‑89/+6)	cvrA/ldcA	putative K(+):H(+) antiporter/murein L,D‑carboxypeptidase
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (7/11);  total (7/11)

ACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGA‑TTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGTTATTCAG  >  NC_000913/1242091‑1242228                                                                       |                                                                     aCGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGA‑ttttttttaca                                                           >  1:244155/1‑77 (MQ=255) aCGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGA‑ttttttttac                                                            <  1:244104/80‑4 (MQ=255)    cTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACAttt                                                         <  1:244105/81‑1 (MQ=255)       tctcTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACAtttt                                                        <  2:244107/79‑1 (MQ=255)       tctcTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTaa                                                      <  1:244106/81‑1 (MQ=255)           ttATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAg                                                     <  1:244108/78‑1 (MQ=255)             atataAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAg                                                >  2:244136/1‑81 (MQ=255)                taAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGAt                                             <  2:244109/81‑1 (MQ=255)                           atatTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATc                                  >  1:244134/1‑81 (MQ=255)                            tatTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCg                                 >  1:244139/1‑81 (MQ=255)                                       gagaCAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTg                      <  1:244110/81‑1 (MQ=255)                                        agaCAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGc                     >  1:244137/1‑81 (MQ=255)                                        agaCAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGc                     >  1:244141/1‑81 (MQ=255)                                         gaCAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGcc                    >  2:244143/1‑81 (MQ=255)                                          aCAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCt                   <  2:244111/81‑1 (MQ=255)                                           cAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCtt                  <  2:244112/81‑1 (MQ=255)                                                     cTTAGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGtt        <  2:244113/81‑1 (MQ=255)                                                        aGCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGTTAt      <  1:244114/80‑1 (MQ=255)                                                         gCCCTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGTTATTc    <  2:244115/81‑1 (MQ=255)                                                            cTGAAGCGTGATTTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGTTATTCAg  >  1:244144/1‑80 (MQ=255)                                                                       |                                                                     ACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGA‑TTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCGGGTGTTATTCAG  >  NC_000913/1242091‑1242228

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑