Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	856,250	C→A	V509V (GTC→GTA)	unknown →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	856,250	0	C	A	96.7%	74.4 / ‑3.4	30	V509V (GTC→GTA)	unknown	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base A (10/19);  minor base T (0/1);  total (10/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

TGGTGTTCCGAGTTGGGGAGCTTAAAAACGGCAACGAGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGATTCCGCGC‑GCTTGTTTGAGGTGCCATATCACGTACTCCCGCTTGTGCTATCGGACGCGGAGCGCGCATTTATCAAGCCGACCGACTGTTTTGTCTGGAGCTTGGGCGCGCAACCGACTGCACTTTCTGTCGGCTATGACTTGATAGTTGATGCGGGC  >  1/856003‑856313                                                                                                                                                                                                                                                          |                                                                tggtgTTCCGAGTTGGGGAGCTAAAAACCGGCAACGGGGGCGAGT‑TTGGGGCGACGTGCTTGCAGGATGTTTCCGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATgg                                                              <  1:816003/251‑1 (MQ=255)     gtTCCGAGTTGGGGAGCTTAAAAACGGCAACGAGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGc                                                           >  1:294858/1‑250 (MQ=255)     gtTCCGAGTTGGGGAGCTTAAAAACGGCAACGAGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGc                                                           >  1:270186/1‑250 (MQ=255)          gggTTGGGGAGCTTAAAACCGGCAACGGGGGCGAGT‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTggg                                                      <  1:575099/248‑1 (MQ=255)                  gAGCTTAAAAACGGCAACGGGGGCGAGA‑TTGGGGCGACGTGCTGGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAAc                                              <  1:524924/250‑1 (MQ=255)                     tgtAAAAACGGAAACGGGGGCG‑GATTTGTGTCGCCGTTCTTGCAGGATGTTTACGACATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACGCCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGAc                                          <  1:507157/249‑1 (MQ=255)                                cAACGGGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGTTTTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTcgg                               <  1:224377/251‑3 (MQ=255)                                cAACGAGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTcgg                               >  1:736308/1‑249 (MQ=255)                                 aaCGGGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATTTTTACGGCATCCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTcggt                              <  1:616503/251‑4 (MQ=255)                                           aga‑TTGTGGCGACGTGCTTGCAGGATGTTTCCGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGa                     <  1:534190/250‑1 (MQ=255)                                            agtttggggagccggccTTGCAGGATGTTCACGCAAGGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGa                     <  1:429749/234‑1 (MQ=255)                                             gtttGTGGCGACGTGCTTGCAGGATTTTTCCGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGc                                                           <  1:399696/209‑1 (MQ=255)                                             gttggtgGCGACGTGCTGGAAGGATGTTTAGGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGat                    <  1:685481/246‑2 (MQ=255)                                             a‑TTGGGGCGAGGTGCTTGCAGGATTTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGata                   <  1:493069/250‑3 (MQ=255)                                             a‑TTGGGGCGACGTGCTTGCAGGATGTTTCCGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGat                    <  1:330367/249‑2 (MQ=255)                                             a‑TTGGGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGat                    <  1:792839/249‑2 (MQ=255)                                                tgtgGCGCCGTGCTTGCAGGATGTTACCGGCAGGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGatatgc                <  1:123973/251‑6 (MQ=255)                                                tgtgGCGACGTGCTGGCAGGATTTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGatatgc                <  1:336286/251‑6 (MQ=255)                                                 gtgGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCATGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGatatg                 >  1:431013/1‑245 (MQ=255)                                                   ggCGACGTGCTTGCAGGATGTTTCCGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGatatgctg              <  1:885890/250‑8 (MQ=255)                                                          tGCTTGCAGGATGTTTACGGCTTGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTTTGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGat                    <  1:114049/237‑2 (MQ=255)                                                          tGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTcggtgggc                          >  1:251048/1‑224 (MQ=255)                                                              tGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGatatgctggttaatgtgggt  >  1:851526/1‑232 (MQ=255)                                                                      gTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGat                    >  1:587443/1‑224 (MQ=255)                                                                                      ccgcTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGata                   <  1:87667/210‑3 (MQ=255)                                                                                          tAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGa                     >  1:7335/1‑204 (MQ=255)                                                                                             ctactCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAACCGACAGCGCTTTCGGTGGGCTATGa                     <  1:715757/201‑1 (MQ=255)                                                                                                  cAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGGCGCGCAGCCGACAGCGCttt                                  >  1:446435/1‑183 (MQ=255)                                                                                                    acacAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTGGgcg                                                    <  1:750627/163‑1 (MQ=255)                                                                                                                      cTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGAGCAGGCGCGGCTT‑TTCGAGGTGCCGTATCACGTGCTACCGCTGGTGCTATCCGATGCCGAGCGTGCGTTTATTAAGCCGACGGATTGTTTTGTATGGAGCCTggg                                                      >  1:650996/1‑143 (MQ=255)                                                                                                                                                                                                                                                          |                                                                TGGTGTTCCGAGTTGGGGAGCTTAAAAACGGCAACGAGGGCGAGA‑TTGTGGCGACGTGCTTGCAGGATGTTTACGGCATGCCCGCCGCTAACTACTCAACACAAAAAGGCGAGTCGCTTTACGTGCCGCCCGATTACACCGCCAAACCGATTGATTCCGCGC‑GCTTGTTTGAGGTGCCATATCACGTACTCCCGCTTGTGCTATCGGACGCGGAGCGCGCATTTATCAAGCCGACCGACTGTTTTGTCTGGAGCTTGGGCGCGCAACCGACTGCACTTTCTGTCGGCTATGACTTGATAGTTGATGCGGGC  >  1/856003‑856313

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑