Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	689,514	0	A	C	53.3%	17.0 / 21.8	15	G456G (GGT→GGG)	lnt	apolipoprotein N‑acyltransferase
Reads supporting (aligned to +/- strand):  ref base A (6/1);  new base C (0/8);  total (6/9)
Fisher's exact test for biased strand distribution p-value = 1.40e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.72e-04

CAGCAAAACCAAACAATGCCGTCAGCACCCACAGCGGCCAGTTGCCGGTACGTGCGTATGGTGTGAGTCCGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGAT  >  NC_000913/689378‑689654                                                                                                                                         |                                                                                                                                             cagcaAAACCAAACAATGCCGTCAGCACCCACAGCGGCCAGTTGCCGGTACGTGCGTATGGTGTGAGTCCGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAAt                                                                                                                                <  2:181983/151‑1 (MQ=255)         ccAAACAATGCCGTCAGCACCCACAGCGGCCAGTTGCCGGTACGTGCGTATGGTGTGAGTCCGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCAccgccg                                                                                                                        >  1:500729/1‑151 (MQ=255)                       cAGCACCCACAGCGGCCAGTTGCCGGTACGTGCGTATGGTGTGAGTCCGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGttgttg                                                                                                          >  2:61769/1‑151 (MQ=255)                                    ggCCAGTTGCCGGTAGGGGCGTATGGTGTGAGTCCGGGGGTCGGCGTCACGTTAGGGGTTACCCCCTCGCGGGTGACCTGGGGGATCACCGCCTGATTCTCCCCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACa                                                                                             <  1:645245/151‑1 (MQ=255)                                                            ggTGTGAGTCGGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCCCCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAgcg                                                                        <  2:19302/148‑1 (MQ=255)                                                                   gcccGGTGGTGGGCGTCACGTTAGTGGTTACCACCTCGGGGGTGAACTGCGGGATCACCGCCTGAATCTCCCCCTGCGGGCCAACCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCAtt                                                                <  1:125518/147‑1 (MQ=255)                                                                              ggCGTCACTTTAGGGTTTAACCCCTCGCGGGTGAACGGCGGGATCATCGCCTGAATCTCCCCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGTGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGa                                                   <  2:648482/151‑1 (MQ=255)                                                                                cGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGa                                                   >  2:600500/1‑149 (MQ=255)                                                                                     cGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTg                                            >  2:277757/1‑151 (MQ=255)                                                                                        tAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGAGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGcc                                          >  2:509954/1‑150 (MQ=255)                                                                                                aaCCCCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCCCCCCCTGCGGCCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCa                                  <  1:395618/150‑1 (MQ=255)                                                                                                                   gCGGGATCATCGCCTGAATCTCCCCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCAc                <  2:500767/149‑1 (MQ=255)                                                                                                                        atcaccGCCTGAATCTCCCCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCg          <  1:307366/150‑1 (MQ=255)                                                                                                                               ccTGAATCCCCCCCTGCGGCCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGAt  <  1:267310/151‑1 (MQ=255)                                                                                                                                 tGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGAt  >  1:181240/1‑149 (MQ=255)                                                                                                                                         |                                                                                                                                             CAGCAAAACCAAACAATGCCGTCAGCACCCACAGCGGCCAGTTGCCGGTACGTGCGTATGGTGTGAGTCCGGTGGTCGGCGTCACGTTAGTGGTTAACACCTCGCGGGTGAACTGCGGGATCATCGCCTGAATCTCACCCTGCGGGCCAATCACCGCCGTAATGCCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGAT  >  NC_000913/689378‑689654

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑