Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,196,292	C→T	34.5%	T390T (ACC→ACT)	icd →	isocitrate dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,196,292	0	C	T	34.5%	29.2 / 16.8	26	T390T (ACC→ACT)	icd	isocitrate dehydrogenase
Reads supporting (aligned to +/- strand):  ref base C (11/6);  new base T (5/4);  total (16/10)
Fisher's exact test for biased strand distribution p-value = 6.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

ATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTA  >  NC_000913/1196154‑1196430                                                                                                                                           |                                                                                                                                            atatGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAAGCGAAAACCGTAACCTATg                                                                                                                                         >  2:308202/1‑143 (MQ=255)    tGCCGGTCAGTACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACt                                                                                                                                      <  1:790896/143‑1 (MQ=14)          tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGaac                                                                                                                                <  1:663947/143‑3 (MQ=14)          tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAGCACTTCGaac                                                                                                                                >  2:342161/1‑141 (MQ=14)           cAGGACAAAGTCAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTCAAGCGGCTGACCTGCTTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAGGCCTTCGAGCg                                                                                                                               >  1:81760/1‑143 (MQ=14)              gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGCACGTCt                                                                                                                            >  1:688299/1‑143 (MQ=14)              gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTACCCTCAGACTTCGACCGTCt                                                                                                                            >  1:723280/1‑143 (MQ=255)                cAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGATCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTga                                                                                                                          >  1:121115/1‑143 (MQ=11)                cAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCGGACCTGAGTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTga                                                                                                                          <  2:153007/143‑1 (MQ=11)                 aaaGTAAAGCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTTATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTgat                                                                                                                         <  1:149786/143‑1 (MQ=11)                    gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTgatgaa                                                                                                                      >  2:103485/1‑141 (MQ=11)                                     tattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa                                                                                                     >  1:663179/1‑143 (MQ=255)                                             ccGCTGAGATGATGCTGCGCCACATGGGTTGGACCGACGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGAGGGCGCTAAACTGCTGAAATGTTcc                                                                                             >  2:798863/1‑142 (MQ=255)                                             ccGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑a                                                                                            <  2:250348/143‑1 (MQ=255)                                                      ggagggtgcGCCACATGGGTGGGACCGCAGCGGCTGACTTAATTGTTCAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGt                                                                                   <  1:462263/137‑1 (MQ=18)                                                             gcgcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGCGGCTAAAACGCTGCAATCTTC‑CGAGGTTGGTGGCGGGa                                                                            >  2:770294/1‑143 (MQ=18)                                                               gcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGatc                                                                          >  2:263974/1‑143 (MQ=255)                                                                           ggACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGAGCATCGAAAACATg                                                              >  1:475116/1‑143 (MQ=255)                                                                                     ggCTGACCTAATTGTTAAAGGTATGGACGGCGCAACCAACGCGAAAACCGCAACCTATGACTTCGACAGCCTGATGGATGGCGCTAGTCTTCTCTAA‑GTCCAAGAGTCTGGTCATGCAATCATCGAAAACATGTAATGCCGTa                                                    <  2:329258/143‑1 (MQ=9)                                                                                              aaTTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGCTTGTTaa                                           >  2:263986/1‑143 (MQ=255)                                                                                                          tATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTGTGTTAAATTTATTAACgg                               >  2:237319/1‑143 (MQ=255)                                                                                                                aGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGCTCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGt                         >  2:526369/1‑143 (MQ=255)                                                                                                                                   aCCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGtttttt      <  1:380823/143‑1 (MQ=255)                                                                                                                                    ccGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTg     <  1:263974/143‑1 (MQ=255)                                                                                                                                       tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTa  <  2:568722/143‑1 (MQ=255)                                                                                                                                       tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGCGAGCGTAACGCTTCCGTTGTTTTTTGttt  >  1:566203/1‑142 (MQ=255)                                                                                                                                           |                                                                                                                                            ATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTC‑AGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTA  >  NC_000913/1196154‑1196430

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑