Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,286,859	T→C	intergenic (+333/+207)	narI → / ← rttR	nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,286,859	0	T	C	100.0%	81.0 / NA	28	intergenic (+333/+207)	narI/rttR	nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (15/13);  total (15/13)

TTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAA  >  NC_000913/1286803‑1286989                                                         |                                                                                                                                   ttaatCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTg                                                  >  2:28892/5‑139 (MQ=9)   aatCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  2:39356/93‑1 (MQ=11)   aatCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            >  1:39356/3‑95 (MQ=255)   aatCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTc                                                           >  1:1198239/3‑128 (MQ=255)   aatCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTc                                                           <  2:1198239/126‑1 (MQ=255)     tCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTg                                              <  1:28892/139‑1 (MQ=18)              ctcATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGCTGGTGGTGCGGGGAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGc                                     >  2:424455/1‑139 (MQ=11)                     ttCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGa                                                                                                        >  1:1090851/1‑65 (MQ=11)                     ttCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGa                                                                                                        <  2:1090851/65‑1 (MQ=11)                      tCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGc                             >  1:547161/1‑139 (MQ=21)                       ccccGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  1:532696/75‑1 (MQ=255)                       ccccGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            >  2:532696/1‑75 (MQ=255)                                ggCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGT‑GTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAAc                                       >  2:592455/1‑118 (MQ=255)                                ggCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGT‑GTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAAc                                       <  1:592455/118‑1 (MQ=255)                                 gCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAg                  >  1:236498/1‑139 (MQ=37)                                   aGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGcc                <  2:236498/139‑1 (MQ=255)                                     aaTATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGaa                                                                                                             <  2:1259548/44‑1 (MQ=255)                                     aaTATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGaa                                                                                                             >  1:1259548/1‑44 (MQ=255)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGaaa                                                                                                            >  2:259366/1‑35 (MQ=17)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGaaa                                                                                                            <  1:259366/35‑1 (MQ=255)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  2:571619/51‑1 (MQ=255)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            >  1:571619/1‑51 (MQ=255)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAATCg    >  2:1507450/1‑139 (MQ=255)                                               tGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAATCg    >  1:666129/1‑139 (MQ=255)                                                gCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAATCGa   <  2:666129/139‑1 (MQ=255)                                                 ctgATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  1:40294/47‑1 (MQ=14)                                                 cGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            >  2:40294/1‑49 (MQ=255)                                                 cGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAATCGaa  <  2:547161/139‑1 (MQ=255)                                                         |                                                                                                                                   TTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAA  >  NC_000913/1286803‑1286989

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑