Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,293,781	2 bp→AT	coding (239‑240/597 nt)	nrfG →	putative formate‑dependent nitrite reductase complex subunit NrfG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,293,781	0	G	A	97.0%	107.1 / ‑4.0	33	G80D (GGC→GAT)	nrfG	putative formate‑dependent nitrite reductase complex subunit NrfG
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (20/12);  total (20/13)
Fisher's exact test for biased strand distribution p-value = 3.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.05e-01
*	NC_000913	4,293,782	0	C	T	97.0%	99.9 / ‑4.0	33	G80D (GGC→GAT)	nrfG	putative formate‑dependent nitrite reductase complex subunit NrfG
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (20/12);  total (20/13)
Fisher's exact test for biased strand distribution p-value = 3.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.69e-01

AGCGATGAAACAGCCCAAAATACCGGTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGGCGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGCAGGCGAACTACG  >  NC_000913/4293539‑4294023                                                                                                                                                                                                                                                   ||                                                                                                                                                                                                                                                  aGCGATGAAACAGCCCAAAATACCGGTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACt                                                                                                                                                                                                                                            <  1:13944/251‑1 (MQ=255)                 aaaaTACCGGTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGa                                                                                                                                                                                                                            <  2:233003/251‑1 (MQ=255)                   aaTACCGGTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGAtt                                                                                                                                                                                                                          >  1:193210/1‑251 (MQ=255)                          gTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCa                                                                                                                                                                                                                    >  1:134966/1‑250 (MQ=255)                                 tGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTg                                                                                                                                                                                                            >  1:3935/1‑251 (MQ=255)                                  gCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGc                                                                                                                                                                                                           >  1:116965/1‑251 (MQ=255)                                               aCGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTc                                                                                                                                                                                               >  1:155617/1‑250 (MQ=255)                                                   tatTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCg                                                                                                                                                                                          >  1:227565/1‑251 (MQ=255)                                                       gATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGc                                                                                                                                                                                      <  1:245959/251‑1 (MQ=255)                                                               ttCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTCCGTGCGACATATCAGCGTCAGCGCAATCCGCCACATCAATTTGCAAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAACTCCGCGCTAATCCACAAAACAGCGAACCGAGCGCGCTCCTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACgt                                                                                                                                                                              >  1:177305/1‑251 (MQ=255)                                                                         cGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACg                                                                                                                                                                    >  2:81315/1‑251 (MQ=255)                                                                           gCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCt                                                                                                                                                                  >  2:60225/1‑251 (MQ=255)                                                                             aGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGGCGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGa                                                                                                                                                                <  2:50666/251‑1 (MQ=255)                                                                                              aacaTGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTgg                                                                                                                                               >  2:87597/4‑251 (MQ=255)                                                                                                               gTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTAc                                                                                                                              >  2:183473/1‑251 (MQ=255)                                                                                                                          cagcgtcagcgCGATCCGCTTCATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTTCAGCAATTCGTTGCTGGCGTACCGTCAGGTGTTGCAACTACTTGGTTAGAGCGCTGAACTGTATGTGGCGCTGTCTACGGTGCTTTAGTACCAGtccagcca                                                                                                                   <  2:169367/251‑1 (MQ=255)                                                                                                                           ggcgtcagcgCGATCCGCTCCATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGccagccag                                                                                                                  <  2:270658/250‑1 (MQ=255)                                                                                                                                                         ccagccagCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATc                                                                                    >  2:177244/1‑251 (MQ=255)                                                                                                                                                                          gAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCt                                                                   <  2:229939/251‑1 (MQ=255)                                                                                                                                                                                       aGGCATTGCAGGCTAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGa                                                       >  1:61845/1‑250 (MQ=255)                                                                                                                                                                                             tGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCAc                                                 <  1:183473/250‑1 (MQ=255)                                                                                                                                                                                                    tAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTg                                          >  1:17889/1‑250 (MQ=255)                                                                                                                                                                                                      aaaTCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGATTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGAtg                                       >  2:63490/1‑251 (MQ=255)                                                                                                                                                                                                              gcTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGc                               >  1:259508/1‑251 (MQ=255)                                                                                                                                                                                                                 aaTCCACCAAACAGCTAACAGTGGGCGTTACTGGATGAGTACGATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGGATGCGGCGCTGGAGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCTCCGCCCTGATGCTGCTGGCtt                             <  2:77279/250‑1 (MQ=255)                                                                                                                                                                                                                  aTCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTcc                           <  1:60225/251‑1 (MQ=255)                                                                                                                                                                                                                   tCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTcg                                                                       <  1:243008/206‑1 (MQ=255)                                                                                                                                                                                                                   tCCACAAAACAGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTcg                                                                       >  2:243008/1‑206 (MQ=255)                                                                                                                                                                                                                             aGCGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTAt                >  2:62858/1‑251 (MQ=255)                                                                                                                                                                                                                               cGAACAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGc              >  1:111341/1‑251 (MQ=255)                                                                                                                                                                                                                                 aaCAGTGGGCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGc              >  1:265319/1‑249 (MQ=255)                                                                                                                                                                                                                                      ggggCGTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGCAGGCGaa       <  2:134966/250‑1 (MQ=255)                                                                                                                                                                                                                                           gTTACTGGATGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGCAGGCGAACTAcg  <  2:193210/251‑1 (MQ=255)                                                                                                                                                                                                                                                   ||                                                                                                                                                                                                                                                  AGCGATGAAACAGCCCAAAATACCGGTGAAAATGCTGACAACACTCACGATATTGATGGTATTTCTCTGTGTCGGCAGTTATCTGTTAAGCCCAAAATGGCAGGCGGTACGTGCGGAGTATCAGCGTCAGCGCGATCCGCTACATCAGTTTGCCAGCCAGCAAACCCCGGAAGCGCAGCTTCAGGCATTGCAGGATAAAATCCGCGCTAATCCACAAAACAGCGAACAGTGGGCGTTACTGGGCGAGTACTATCTGTGGCAAAACGATTACAGCAATTCGTTGCTGGCGTACCGTCAGGCGTTGCAACTACGTGGTGAGAACGCTGAACTGTATGCGGCGCTGGCGACGGTGCTTTATTACCAGGCCAGCCAGCATATGACCGCCCAGACTCGCGCAATGATCGACAAAGCCCTCGCGCTGGACAGTAATGAAATCACCGCCCTGATGCTGCTGGCTTCCGATGCGTTTATGCAGGCGAACTACG  >  NC_000913/4293539‑4294023

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑