Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	1,313,943	A→C	33.3%	L614R (CTG→CGG)	CJ019_01235 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	1,313,943	0	A	C	33.3%	20.9 / 2.7	34	L614R (CTG→CGG)	CJ019_01235	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (17/3);  new base C (2/8);  total (19/15)
Fisher's exact test for biased strand distribution p-value = 9.74e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATGAAGGTGTCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGTACAGGGCGATGTCGGCGCAGCGGAT  >  KT2440/1313814‑1314073                                                                                                                                  |                                                                                                                                   aTGAAGGTGTCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGACCTCCTCATTGCGCAGGGcc                                                                                                                               >  1:276289/1‑135 (MQ=255) aTGAAGGTGTCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCCGGGcc                                                                                                                               >  4:215484/1‑135 (MQ=255) aTGAAGGTGTCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGcc                                                                                                                               >  8:50784/1‑135 (MQ=255)          tCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGGGGGTAATGCAACTCGAACTCCTCATTGCGCACGGCCCGGGGCAgg                                                                                                                      >  1:393116/1‑135 (MQ=255)             ggCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGCCCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGGAATGCAACTCGAACTCCTCATTGCGCAGGGCCCGGCGCCGGTCg                                                                                                                   >  1:323280/1‑135 (MQ=255)             ggCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCg                                                                                                                   >  6:130938/1‑135 (MQ=255)                  cAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCCGGGCCCGGCGCAGGGCGTtgtc                                                                                                              >  5:228226/1‑135 (MQ=255)                         ccTTCCTGTCGAGGCCCCCCGCCCACCAGGCCCGCGCCCGCGCCTATGCGCCGGGCGCCCCGGGGGTCGGGGGGCGTGTAATCCAACCCCACCTCCTCATGGCGCCGGCCCCGGCGCAGGTCGTTCTCCAGCTgg                                                                                                       <  8:5010/135‑1 (MQ=255)                                gtgGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGt                                                                                                >  2:12797/1‑135 (MQ=255)                                      gccgccAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGa                                                                                          >  3:386369/1‑135 (MQ=255)                                        cgccAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATc                                                                                        >  7:9544/1‑135 (MQ=255)                                         gccAGCGCACCAAGGCGTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCGCCAGCTGGCGGCGGTAGTGGATcg                                                                                       >  2:98893/1‑134 (MQ=255)                                                       gCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCg                                                                         >  3:332432/1‑135 (MQ=255)                                                             aCCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACGGGCTCTGCTGGTTCATTTCGGCAAc                                                                    >  7:326666/1‑134 (MQ=255)                                                              ccGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAAc                                                                    >  7:40045/1‑133 (MQ=255)                                                                gcgACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGTCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGaa                                                                 >  7:110514/1‑134 (MQ=255)                                                                gcgACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGaa                                                                 >  8:358306/1‑134 (MQ=255)                                                                    cgaTTCGCCGGGCGTCCCGGCGGTTGCGTGGCTGGTAATCCAACTCGAACTCCTCATTGCGCTGGGCCGTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAgc                                                            <  6:278013/135‑1 (MQ=255)                                                                    cgaTTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAgc                                                            >  4:153112/1‑135 (MQ=255)                                                                          gCAGGTCGTCCCGGGGGTAGGGGGGCTGGTAATGCACCTCGAACTCCTCATTCCGCCGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCAt                                                       <  6:192152/134‑1 (MQ=255)                                                                                   ccAGGGGGGAGGGGGGCTGTTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTc                                             <  1:17517/135‑1 (MQ=255)                                                                                         gtgcgggTGGCTGGTATGCCACCTCGAACTCCTCATGGCGCGGGGCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCgg                                       <  2:370801/129‑1 (MQ=255)                                                                                         ggttgggTGGCTGTTACTGCAAGTCGACCGCCTCATGGCGCAGGCCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCgg                                       <  2:262141/129‑1 (MQ=255)                                                                                         ggtcgggTGGCTGGTACTGAACCTCGACCTCCTCTTTGCGCTGGGCCCGGCGCAGGTCGTGCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCgg                                       <  7:203508/129‑1 (MQ=255)                                                                                         ggTGGCGTGGGTTCTACTGAACCTCGCACTCATCTTGGCGGCGGGCCGTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCgg                                       <  3:144178/135‑1 (MQ=255)                                                                                         ggTAGGGTGGCTGGTAATGCAACTCGAACTCCTCATGGCGCCGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCgg                                       <  7:73263/135‑1 (MQ=255)                                                                                              ggTGGCGGGTACTCCACCTCCACCCCCTCATGGCCCCGGCCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTg                                  <  2:174882/134‑1 (MQ=255)                                                                                              cGTGGCTGGTAATGCACCGCCAACTCCTAATTGCGCCGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTg                                  <  6:298084/135‑1 (MQ=255)                                                                                                   ctgtaaaTGCACCTCGAACTCCTCATGCCGCGGGCCCCTGCCCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTg                             <  6:334962/130‑1 (MQ=255)                                                                                                    tGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCCACGCAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTgg                            >  5:13509/1‑135 (MQ=255)                                                                                                     ggTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGt                           >  4:18095/1‑135 (MQ=255)                                                                                                                   acctcctcATTGCGCAGGGCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGTACAGGGCGATGTCg             <  8:110514/133‑1 (MQ=255)                                                                                                                            gtGCGCCGGGCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGTACAGGGCGATGTCGGCGCAGCg     <  4:386369/133‑1 (MQ=255)                                                                                                                              gcgcCGGCCCCGGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGTACAGGGCGATGTCGGCGCAGCGGAt  <  6:228226/135‑1 (MQ=255)                                                                                                                                  |                                                                                                                                   ATGAAGGTGTCCGGCGCCAGCAACCCTTCCTGTGGATGCCGCCAGCGCACCAAGGCCTCGACCGCGACGATTCGCAGGTCGTCCAGGCGGTAGCGTGGCTGGTAATGCAACTCGAACTCCTCATTGCGCAGGGCCCTGCGCAGGTCGTTCTCCAGCTGGCGGCGGTACTGGATCTGCTGGTTCATTTCGGCAACGAAGTAGCGCCATGTGTTCTTTCCATCGGCCTTGGCCTGGTACAGGGCGATGTCGGCGCAGCGGAT  >  KT2440/1313814‑1314073

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑