Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,630,700	T→G	28.6%	L426L (CTT→CTG)	PP_3200 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,630,700	0	T	G	28.6%	12.7 / 6.9	14	L426L (CTT→CTG)	PP_3200	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (7/3);  new base G (2/2);  total (9/5)
Fisher's exact test for biased strand distribution p-value = 5.80e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

GTTGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGACCGTGACGCCACCAGCCTGCGCCTGGTGTTCGA  >  NC_002947/3630568‑3630846                                                                                                                                     |                                                                                                                                                   gTTGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCAGGCTGGCAAGCCAGGa                                                                                                                                         <  1:413/144‑1 (MQ=255) gTTGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCAGGCTGGCAAGCCAGGa                                                                                                                                         >  2:413/1‑144 (MQ=255)  ttGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCtt                                                                                                                                                    >  1:462146/1‑132 (MQ=255)  ttGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCtt                                                                                                                                                    <  2:462146/132‑1 (MQ=255)                                                   tGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCggg                                                                                 <  1:251224/150‑1 (MQ=255)                                                       cGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGtgat                                                                             >  1:2372/1‑150 (MQ=255)                                                          gggCGAGGCGATCGACAATGACGATAACNNGGTTTATGCCACCGNCNGNACGCTGCACGCCAACGTCTCCTGGCTTGCCGGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGGCTGGAAGCGGGttgtgtg                                                                          >  1:320860/1‑144 (MQ=255)                                                                       gACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAAc                                                             >  1:42946/1‑150 (MQ=255)                                                                             gACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGAt                                                       >  1:336566/1‑150 (MQ=255)                                                                                      aaggTTTATGCCACCGGCCGCACGTTGAACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCATGGGACCGGGTGATGAGGGTGAGCAAGAACGCCGATGCCGTTGAc                                              >  2:469835/3‑150 (MQ=255)                                                                                                                      gttcggctcCAGGCTGGCAAGCCAGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGACCGTGACGcca                        >  1:5749/7‑140 (MQ=255)                                                                                                                      gttcggctcCAGGCTGGCAAGCCAGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGACCGTGACGcca                        <  2:5749/134‑1 (MQ=255)                                                                                                                        aCGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAg                                                                >  1:221694/1‑98 (MQ=255)                                                                                                                        aCGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAg                                                                <  2:221694/98‑1 (MQ=255)                                                                                                                               cTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGCCCGTGACGCCACCAGCCTGCGCCTGGTGtt     >  1:87460/1‑150 (MQ=255)                                                                                                                                  gCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGACCGTGACGCCACCAGCCTGCGCCTGGTGTTCGa  <  2:2372/150‑1 (MQ=255)                                                                                                                                     |                                                                                                                                                   GTTGTCAACCCGCTGGAACCAGCCGTTGGCCTCGACCAACCAGCATGCGTTGGCCGTGGGCGAGGCGATCGACAATGACGATAACCCGGTTTATGCCACCGGCCGCACGCTGCACGCCAACGTCTCCTGGCTTGCCAGCCTGGAGCCGAACTTCATCGCTGCCGAGTCGAGCTTCCTCGGCGAAATCGCCTGGAACCGGGTGATGAGCGTGAGCAAGAACGCCGATGCCGTTGACCCTAACGCCGACCGTGACGCCACCAGCCTGCGCCTGGTGTTCGA  >  NC_002947/3630568‑3630846

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑