Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,286,885	T→C	13.8%	intergenic (+359/+181)	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	1,286,885	0	T	C	13.8%	85.3 / 4.3	45	intergenic (+359/+181)	narI/rttR	nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
Reads supporting (aligned to +/- strand):  ref base T (18/17);  new base C (2/4);  total (21/24)
Fisher's exact test for biased strand distribution p-value = 6.63e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGG  >  NC_000913/1286738‑1287031                                                                                                                                                    |                                                                                                                                                   tGCGCGCTTCGCCCTTCGGGGCGTTGCCTGCGGCAACGCTCTCACGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGa                                                                                                                                                  <  2:986199/150‑1 (MQ=255)   cgcgcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGAtg                                                                                                                                                <  1:1814829/150‑1 (MQ=255)    gcgcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGAtgg                                                                                                                                               <  2:993904/150‑1 (MQ=255)    gcgcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGAtgg                                                                                                                                               <  1:842628/150‑1 (MQ=255)       cTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGGCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGAtggtgg                                                                                                                                            <  1:1203189/150‑1 (MQ=255)         tCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGAtggtggtg                                                                                                                                          <  2:1853155/150‑1 (MQ=255)           gCCGTTCGGGTGGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCTAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGGGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggg                                                                                                                                        <  1:481831/150‑1 (MQ=255)           gCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggg                                                                                                                                        <  2:1309116/150‑1 (MQ=255)            cccTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTgggg                                                                                                                                       <  1:632731/150‑1 (MQ=255)            cccTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATACTTCCCCGCGTGGGCAGAAGATTTGATTGCGGATTCGATTGAGAATTCAGGGGCTTTTGAAATTGATGGTGGTgggg                                                                                                                                       >  2:1502869/1‑150 (MQ=14)             ccgtCGGGGCGTAGCCTGCGGGAACGCGCTCTCGCTGGCGCGCAAGGCGAACCTTGGGCGAAGCTTCTCATCCTTACCCGCGTGGGCAGAATATTTGATTGCGGCTGCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                                                                      <  1:377216/147‑1 (MQ=14)             ccTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAAACTTTGTCGAAGCTTCTCATCCTTCCCCCCATTGGCAGAATATTTTAATTCGGATTCGTTTGAGAATTCAGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                                                                      >  2:955532/1‑150 (MQ=14)                   ggTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCCTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGGTTGAGAGTTCCGGGGCTTTTGAAAGTGATGGTTGTTGGGGAgggca                                                                                                                                >  1:546868/1‑148 (MQ=14)                           ccTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGATTGAGAATTCAGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAgc                                                                                                                        >  2:1249044/1‑150 (MQ=255)                            cTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGATTTAAGGGCCTTTTGAAAGTGATGGTTGTTGGGTAGAGATTCCTCAacg                                                                                                                       >  2:1421158/1‑150 (MQ=14)                                           ctcGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATAATTGCGGGAGGTGTCCGGTGAGAAGTCCGGGGCCAGTGACAGGGAGGGTGGAGGGGGAAGGATTACTCACCGCTGCGCGCGTCgggc                                                                                                        >  1:553293/1‑147 (MQ=12)                                             cGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGATTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGTTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCtt                                                                                                      >  1:710851/1‑150 (MQ=255)                                                   cgcTCAAGTCGAACCTTGGTCTAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGTGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTc                                                                                                <  2:611192/150‑1 (MQ=255)                                                                      tCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGTCAACGctc                                                                             >  1:926127/1‑150 (MQ=255)                                                                           gCTTCTCCTCCGTCCCCGCTTGGGCAGAATATTTGATTCCGGATTAGTTTGAGTATTCCGGGGCTTTAGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCg                                                                        <  1:883981/150‑1 (MQ=14)                                                                             ttCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAg                                                                                                                                   >  1:1629317/1‑89 (MQ=255)                                                                                 cATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCg                                                                                                    >  1:1575574/1‑116 (MQ=255)                                                                                 cATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCg                                                                  >  1:555057/1‑150 (MQ=255)                                                                                 cATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCg                                                                                                    <  2:1575574/116‑1 (MQ=12)                                                                                     cTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCg                                                              >  1:1246240/1‑150 (MQ=255)                                                                                        ccccGCTTGGGCAGAATATTTGATTGCGGATTCGGTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGc                                                                                           >  2:1109652/1‑118 (MQ=255)                                                                                        ccccGCTTGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGc                                                                                           <  1:1109652/118‑1 (MQ=12)                                                                                                   cAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGACGAACCTTAGt                                                >  2:1287681/1‑150 (MQ=255)                                                                                                     taaTATGTGTTGGCGGATGAGCTTGTGTATTCGGGTTTTTTTGTTAGGGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCg                                              <  1:1598558/149‑1 (MQ=11)                                                                                                         atTTGATTGCGGATTCGTTTGAGAATTCCGGGTCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCg                                                         <  2:1277008/135‑1 (MQ=12)                                                                                                         atTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCg                                                         >  1:1277008/1‑135 (MQ=21)                                                                                                                  cggacgcGTTTGTCAATGCCGGGGCTTGTGTATGTGAGTGGGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATcc                                 <  1:1068393/144‑1 (MQ=14)                                                                                                                       tCGTTTGAGAATTCCGGGTCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgtc                                                          <  2:59309/120‑3 (MQ=255)                                                                                                                       tCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgtc                                                          >  1:59309/1‑118 (MQ=255)                                                                                                                         gTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGCCGCTCGAGACGAACCTTAGTCGAAGCTTCTCATCCTTccccc                          >  2:555785/1‑149 (MQ=255)                                                                                                                            tcagtaTTCCGGGTCTTAAGTAAGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCAt                       <  1:483912/145‑1 (MQ=14)                                                                                                                             gagaATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCAGCGGCAACGCTCTCTCGCTGGCGCTCGAGGCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATg                      >  1:787508/1‑150 (MQ=255)                                                                                                                               gaATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGCCGCTCGAGTCGAACCTTTGTCGAAGCTTCTCATCCTTCCCCGCATggg                    >  1:1191192/1‑150 (MQ=255)                                                                                                                                             ttGGAAGGGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGAtt      <  2:605944/150‑1 (MQ=255)                                                                                                                                             aagtaaGGGATGGTGGTGGGTGAATGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGGCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGAtt      <  2:201697/146‑1 (MQ=14)                                                                                                                                              aggaaGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCTCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAg                                                 <  2:1005263/103‑1 (MQ=255)                                                                                                                                              aggaaGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAg                                                 >  1:1005263/4‑106 (MQ=255)                                                                                                                                              aggaaGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCt                                >  2:351405/4‑123 (MQ=25)                                                                                                                                              aggaaGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCt                                <  1:351405/120‑1 (MQ=25)                                                                                                                                                 aaGCGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCgg  <  1:1010282/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                   TGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCAAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGG  >  NC_000913/1286738‑1287031

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑