Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,031	T→C	G77G (GGT→GGC)	thrB →	homoserine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,031	0	T	C	90.0%	84.5 / NA	31	G77G (GGT→GGC)	thrB	homoserine kinase
Reads supporting (aligned to +/- strand):  ref base T (1/0);  major base C (10/17);  minor base A (3/0);  total (14/17)
Fisher's exact test for biased strand distribution p-value = 7.04e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GACATGGTTAAAGTTTATGCCCCGGCTTCCAGTGCCAATATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAACTGGGTAAGCAAATTCCAGTGGCGATGACCCTGGAAAAGAATATGCCGATCGGTTCGGGCTTAGGCTCCAGTGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGCGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGCCGTATCTCCGGCAGCATTCATTACGACAACGTGGCACCGTGTTTTCTCGGTGGTATGCAGTTGATGATCGA  >  NC_000913/2798‑3267                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                             gACATGGTTAAAGTTTATGCCCCGACTATCAGTGCCAATATGATGGTCGGGTTTTATGTGCGTGGGGCGGCTGTGACTCCCGTGGATGGTGCATGTCTCGGAGATGTAGTCGCGGTTGAGGCGGCAGAGACATTCAGTATCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTg                                                                                                                                                                                                                               <  2:321635/249‑1 (MQ=255)          aaaGTTTATGCCCCGGCTTCCAGTGCCAATATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGActc                                                                                                                                                                                                                     <  1:191377/250‑3 (MQ=255)                     cccGGCTTCCAGTGCCAATATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAata                                                                                                                                                                                                         <  1:13191/251‑1 (MQ=255)                       cgtgtcccAGGGCCTATATGAGCGTTGGGTTTGAGGTGATCTGGGCGGCGTTGACCGCTGTTGATGTTGCATTGATCGGAGATGTAGTCACGGTTGAGGCGGCAGAGCCATTCAGCTTGAACAACCTCGGACGCTTTGCCGATAAGCTGTCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCGGGGAGCGTTTTTGCAAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATg                                                                                                                                                                                                       <  2:186355/245‑1 (MQ=255)                              cAGTGCCAATATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCg                                                                                                                                                                                                >  1:60349/1‑251 (MQ=255)                                     aaTATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGCAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATAAGCCAATCGGTTCggg                                                                                                                                                                                         >  1:37420/1‑251 (MQ=255)                                         ggAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTa                                                                                                                                                                                     <  1:290552/250‑1 (MQ=255)                                              gTCGGGTTTGCTGTGCTCGGGGCTGCGTTGATACCTGTTGTTGGTGCATTGCACGGTGATGTAGTCACGGTTGAGGCGGCAGAGACATTCATTCTCAACAACCTAGGACGCTGTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTCTCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCTATGACTCTGAAAAAGAATAGGCCAATCGGTTCGTGCTTAGGCTc                                                                                                                                                                                <  2:328350/251‑1 (MQ=255)                                                cGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTcc                                                                                                                                                                               >  1:207841/1‑250 (MQ=255)                                                                ggggCGGCGGTGACCCCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGGAAATATCGTTTTTCAGTGCTGGGAGCGGTTTTGCCAGGAGCTTGGAAAGCAAATTCCAGTGGCGGTGACTCTGGTACAGAATAAGACAACCGGTTCGGGCTTAGGCTcccgcgccggttccggggg                                                                                                                                                              >  2:167861/1‑234 (MQ=255)                                                                                 tGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCgg                                                                                                                                             >  1:5604/1‑250 (MQ=255)                                                                                     gaggggtatttGCTAGGAGATGTAGTCACGGTTGAGGCGGCAGAGACAGTCAGTCTCAACACCCTCGGACGCTGGGCCGATAAGCTGCCGTCAGAACCACGGTAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCGCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGatgaa                                                                                                                                         <  2:174256/242‑1 (MQ=255)                                                                                       gggTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGatgaatg                                                                                                                                       <  1:57202/250‑1 (MQ=255)                                                                                              ttGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAACTATCGTTTATCAGTGCTGGGGGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGGTGATGGCGTTGAATGAACACTg                                                                                                                                >  1:255789/1‑251 (MQ=255)                                                                                                     gggtggtaggtaCGGTTGAGGCGGCAGAGACATTCAGGCGCAACAACCTCGGACGCTTGGCCGATAAGCGGCCGTCAGAACCACGGGAAAATATCGTTTACCAGGGCTTGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATTCCAATCGGTTCGGGCGTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAg                                                                                                                         <  2:314631/240‑1 (MQ=255)                                                                                                            aGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAGGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCtt                                                                                                                   <  1:60902/250‑1 (MQ=255)                                                                                                             gTCACGGGTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGTAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTTGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTaa                                                                                                                 <  1:228301/251‑1 (MQ=255)                                                                                                                                    aTTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGAAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGAAACTCGTTTGCTGGCTTTg                                                                                           >  1:249051/1‑250 (MQ=255)                                                                                                                                      tCAGTCTCAACAACCTCGGACGTTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCATTTGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGTTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACGGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGAt                                                                                         <  2:320071/250‑1 (MQ=255)                                                                                                                                             acacaacCTCGGGCGCTGTGCCGGTAAGCTGCCGTCAGAACCATGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAg                                                                                  <  2:11774/248‑1 (MQ=255)                                                                                                                                                 aacCTCGGACGCTTTGCCGATAAGCTGCTGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCTTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGa                                                                             <  1:307009/251‑1 (MQ=255)                                                                                                                                                               ttccGATAAGCCGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTTGGAGCGTTGTTGCCAGGAGCTTTGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGTCACTCGTTTGCTTGCTTTGATGGGCGAGCTGGAAgtacgaatctcc                                                                <  2:364497/248‑12 (MQ=255)                                                                                                                                                                   gATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGgc                                                             >  1:248367/1‑249 (MQ=255)                                                                                                                                                                                     ccACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCATTCATTACGACAACGt                                         <  1:239105/251‑1 (MQ=255)                                                                                                                                                                                           gcaaaTATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGACAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGCCAAGCCGCTTAATGACACCCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCCTTCATTACGACAACGTGGCAcc                                   >  2:116847/3‑251 (MQ=255)                                                                                                                                                                                             aaaTATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCATTCATTACGACAACGTGGCACCgt                                 >  1:368578/1‑251 (MQ=255)                                                                                                                                                                                              aaTATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCATTCATTACGACAACGTGGCACCgtg                                >  1:265228/1‑251 (MQ=255)                                                                                                                                                                                              aaTATCGTTTATAAGTGATGGGAGCGTTTTTGCCAGGAGCTTGGAAAGCAAATTCCAGTGGCGCTGACTCTGGAAAAGAATATGCCAATAAGTTCGGGCTTAGGCTCCAAAGCCTGTGCGGTGGACGCGGAGCTGATGGCGATGAATGAACACTGGGGCAGGCGGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGCGCTGGAAGGACGAATATCCGGCAGCAGTCATTACGACaatgatacaccg                                  >  1:299711/1‑239 (MQ=255)                                                                                                                                                                                                   cGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCATTCATTACGACAACGTGGCACCGTGtttt                            <  1:78269/250‑1 (MQ=255)                                                                                                                                                                                                                  ggAGCGTTTTTGCCAGGAACTGGGTAAGCAAATTCCAGTGGCGATGACCCTGGAAAAGAATATGCCGATCGGTTCGGGCTTAGGCTCCAGTGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGCGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGCCGTATCTCCGGCAGCATTCATTACGACAACGTGGCACCGTGTTTTCTCGGTGGTATGAAGt            >  1:232366/1‑251 (MQ=255)                                                                                                                                                                                                                             gCCAGGAGCTTGGCAAGCAAATTCCAGTGGCGATGACTCTGGAAAAGAATATGCCAATCGGTTCGGGCTTAGGCTCCAGCGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGTGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGACGAATCTCCGGCAGCATTCATTACGACAACGTGGCACCGTGTTTTCTTGGTGGTATGCAGTTGATGATCga  >  1:142000/1‑250 (MQ=255)                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                             GACATGGTTAAAGTTTATGCCCCGGCTTCCAGTGCCAATATGAGCGTCGGGTTTGATGTGCTCGGGGCGGCGGTGACACCTGTTGATGGTGCATTGCTCGGAGATGTAGTCACGGTTGAGGCGGCAGAGACATTCAGTCTCAACAACCTCGGACGCTTTGCCGATAAGCTGCCGTCAGAACCACGGGAAAATATCGTTTATCAGTGCTGGGAGCGTTTTTGCCAGGAACTGGGTAAGCAAATTCCAGTGGCGATGACCCTGGAAAAGAATATGCCGATCGGTTCGGGCTTAGGCTCCAGTGCCTGTTCGGTGGTCGCGGCGCTGATGGCGATGAATGAACACTGCGGCAAGCCGCTTAATGACACTCGTTTGCTGGCTTTGATGGGCGAGCTGGAAGGCCGTATCTCCGGCAGCATTCATTACGACAACGTGGCACCGTGTTTTCTCGGTGGTATGCAGTTGATGATCGA  >  NC_000913/2798‑3267

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑