Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_hsa_tpiA	1,544,021	1	.	A	72.2%	44.1 / 14.6	18	coding (40/1389 nt)	narU	nitrate/nitrite transporter
Reads supporting (aligned to +/- strand):  ref base . (1/4);  new base A (4/9);  total (5/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TGAGATTAACGGTAACTG‑CGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCG‑C‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATT  >  NC_000913_3_hsa_tpiA/1543880‑1544150                                                                                                                                                 |                                                                                                                                   tGAGATTAACGGTAACTG‑CGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCG‑A‑aaaaag                                                                                                                            <  2:260940/149‑3 (MQ=255)  gagaTTAACGGTAACTG‑CGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCG‑A‑aaaaaga                                                                                                                           <  1:150447/149‑4 (MQ=255)      tatacgttAACTGCCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATaa                                                                                                                         <  1:156746/142‑1 (MQ=255)                       tAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCAtt                                                                                                        >  2:59370/1‑149 (MQ=255)                          aTAGAATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCAGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTg                                                                                                     >  2:318996/1‑149 (MQ=255)                            aGCATCCACACAAAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGTTTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGACGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCa                                                                                                   <  1:81403/149‑1 (MQ=255)                                         aaaaGACAAGAAGGAGACAACTGATTGATATCCAGAGATTTCTTCGAGCAAGATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TAAAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGtt                                                                                      <  2:28385/147‑1 (MQ=255)                                                       aGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTGTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGcacac                                                                        <  1:205445/149‑1 (MQ=255)                                                                actgaTATCCAGAGATTTCTTCGAGCACAATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATTCACACATTGGTAAt                                                               >  2:405588/1‑149 (MQ=255)                                                                                            tatGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGgc                                   <  1:47631/149‑1 (MQ=255)                                                                                                  ttCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATa                             <  1:314302/149‑1 (MQ=255)                                                                                                    ccTTTATTTACCCAGAAGGCCGGTTTTTATGGTTAAAAAAAAAAA‑A‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGc                           <  2:204707/149‑1 (MQ=255)                                                                                                      tttATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCa                         >  2:129732/1‑149 (MQ=255)                                                                                                       ttATGTTCCTAGAAGGCCGGATTTTTTGGTT‑TGCGGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAg                        <  2:260934/149‑1 (MQ=255)                                                                                                                    agtccGGGTTTTCTGGTG‑GCCCGCCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCAAACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTaa           <  1:374173/146‑1 (MQ=255)                                                                                                                             tttCTGGTT‑TCCAGTCGCGAA‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAAtt  <  1:129732/149‑1 (MQ=255)                                                                                                                                         cAGTCGCG‑AAAAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAgg                                         >  1:88207/1‑99 (MQ=255)                                                                                                                                         cAGTCGCG‑AAAAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAgg                                         <  2:88207/99‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                   TGAGATTAACGGTAACTG‑CGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTT‑TCCAGTCGCG‑C‑AAAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATT  >  NC_000913_3_hsa_tpiA/1543880‑1544150

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: ‑