Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,361,076	T→C	intergenic (+460/‑100)	gltD → / → gltF	glutamate synthase subunit GltD/periplasmic protein GltF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,361,076	0	T	C	100.0%	35.5 / NA	11	intergenic (+460/‑100)	gltD/gltF	glutamate synthase subunit GltD/periplasmic protein GltF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (7/4);  total (7/4)

ACCAGCACCTTATTATTCACATGATCGTAACTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCTATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCTTCAGCTTTTTATT  >  NC_000913/3361006‑3361140                                                                       |                                                                 aCCAGCACCTTATTATTCACATGATCGTAACTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAAc                                                        >  1:628984/1‑81 (MQ=255)                             aaCTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACaaa                                >  1:628982/1‑77 (MQ=255)                              aCTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGa                            >  1:628972/1‑80 (MQ=255)                              aCTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGa                            >  1:628987/1‑80 (MQ=255)                                         cATTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGc                >  1:628985/1‑81 (MQ=255)                                          aTTAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGc                <  2:628973/80‑1 (MQ=255)                                           ttAAATAAATACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCtt              <  2:628974/81‑1 (MQ=255)                                            taaataaaTACATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCtt              >  1:628990/1‑80 (MQ=255)                                                  aataCATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCTTCAGCttt       >  1:628986/1‑81 (MQ=255)                                                    taCATCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCTTCAGCttttt     <  1:628975/81‑1 (MQ=255)                                                       aTCCCAGCAAGTTGGCCATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCTTCAGCTttttatt  <  2:628976/81‑1 (MQ=255)                                                                       |                                                                 ACCAGCACCTTATTATTCACATGATCGTAACTATAAAATTCATTAAATAAATACATCCCAGCAAGTTGGCTATTTCTGAACGAGTTATTTATTTACATTCACAAACAGATATATATACTGCTTCAGCTTTTTATT  >  NC_000913/3361006‑3361140

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑