Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	450,156	0	C	.	64.7%	10.4 / 24.5	17	coding (486/1992 nt)	cyoB	cytochrome bo3 subunit 1
Reads supporting (aligned to +/- strand):  ref base C (5/1);  new base . (6/5);  total (11/6)
Fisher's exact test for biased strand distribution p-value = 3.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.61e-01
Rejected as consensus: Frequency below/above cutoff threshold.

AATCAGTACGTTCGCGCACAGTGATGCCCAGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTGCGCGGTAAAGATCTGATCGTAGTGGTGAGGTGGCAGGAAGCCCGCTTCGCCCGCCGAGGCAAGAGCCTGCTGGCTAC  >  NC_000913/449925‑450403                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                        aatCAGTACGTTCGCGCACAGTGATGCCCAGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAAc                                                                                                                                                                                                                                     >  1:212306/1‑251 (MQ=255)  atCAGTACGTTCGCGCACAGTGATGCCCAGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAAcc                                                                                                                                                                                                                                    >  1:87568/1‑251 (MQ=255)    cAGTACGTTCGCGCACAGTGATGCCCAGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAAcc                                                                                                                                                                                                                                    >  1:178645/1‑250 (MQ=255)                              aGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAAcc                                                                                                                                                                                                           >  2:83663/1‑248 (MQ=255)                                      aCTGGCATCTTAAAAATGGTTATGGCCCGCGCGCGGATCTTCAGAATGCTAACGAAGAAGCTGATACCGGTAAGCGACGCACCCATCCCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGCTTCCCGGACTGTACTCTATTCACGATAGCCGTGGATACGCCCGCCAGCCGGTCTGAGCACACTCGCCCACGCCGAGCGAAACGTTCACCCGAATCACACCAACAACGGTAAACCAAAAGCTTa                                                                                                                                                                                                  >  2:28476/1‑250 (MQ=255)                                                              cccGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACg                                                                                                                                                                        <  1:83663/251‑1 (MQ=255)                                                                                        aaCGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAac                                                                                                                                              <  1:64946/251‑1 (MQ=255)                                                                                              gaagTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAaccacc                                                                                                                                          >  1:191495/1‑249 (MQ=255)                                                                                                            tAAGCGTCGTACCTATACCGGATAGATGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCg                                                                                                                           >  1:49046/1‑250 (MQ=255)                                                                                                                                           aCTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCAATAACGAAAGGCATCGCCACGAAGAAGATCAt                                                                                           >  2:136221/1‑251 (MQ=255)                                                                                                                                               cATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAAt                                                                                        >  1:105451/1‑251 (MQ=255)                                                                                                                                                       gTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCGGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTg                                                                               <  1:203586/251‑1 (MQ=255)                                                                                                                                                        tAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTg                                                                               >  2:207106/1‑251 (MQ=255)                                                                                                                                                                          ggACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGGCACGCGCGCCGATCTGCAGCGTAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGAGCATAATCACGCCGTGCGCGGTAAAGATCTGATc                                                             <  1:216414/251‑1 (MQ=255)                                                                                                                                                                                                      gATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCC‑ACGCCGAGAGAAACGTTAACCAGAAGCACACCAACAACGGTAAACCAGAAGCGTAAGGTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAGGAAGATCATAATCACGCCGTGCGCGGTAAAGATCTGATCGTAGTGGTGAGGTGGCAGGAAGCCCGCtt                                <  2:223139/251‑1 (MQ=255)                                                                                                                                                                                                                       gTCTGCGCAAATTCGCC‑ACGCCGAGAAAAACGTAAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGACCGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAACCACGCCGTGCGCGGAAAAGATCTGATCGTAGGGGTGAGGTGGCAGGAAGCCCGCTTCGCCCGCCGAGGCAaga               <  2:87568/251‑1 (MQ=255)                                                                                                                                                                                                                                aaTTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTGCGCGGTAAAGATCTGATCGTAGTGGTGAGGTGGCAGGAAGCCCGCTTCGCCCGCCGAGGCAAGAGCctgctg       >  1:11798/1‑251 (MQ=255)                                                                                                                                                                                                                                     cgccACGCCGAGAGAAACGTTAACCAGAATAACACCAACAACGGTAAACCAGAAGCTTAAGATGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAAACACCAGGTTCAACAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTGCGCGGTAAAGATCTGATCGTAGTGGTGAGGTGGCAGGAAGCCCGCTTCGCCCGCCGAGGCAAGAGCCTGCTGGCTAc  >  1:216870/3‑251 (MQ=255)                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                        AATCAGTACGTTCGCGCACAGTGATGCCCAGGTAAATACTGGCATCTTGAACATGGTCATGCCCGGTGCGCGCATCTTCAGAATGGTAACGAAGAAGTTGATACCGGTAAGCGTCGTACCTATACCGGATAGCTGGAGACTCCATATCCAGTAATCGACACCGACTCCCGGACTGTACTCTATTCCCGATAGCGGTGGATAGGCCAGCCAGCCGGTCTGCGCAAATTCGCCCACGCCGAGAGAAACGTTAACCAGAATCACACCAACAACGGTAAACCAGAAGCTTAAGTTGTTGAGGAACGGGAACGCAACGTCACGCGCGCCGATCTGCAGCGGAACCACCAGGTTCATCAGACCGATAACGAAAGGCATCGCCACGAAGAAGATCATAATCACGCCGTGCGCGGTAAAGATCTGATCGTAGTGGTGAGGTGGCAGGAAGCCCGCTTCGCCCGCCGAGGCAAGAGCCTGCTGGCTAC  >  NC_000913/449925‑450403

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑