Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,575,947	0	A	C	60.0%	6.9 / 13.5	15	V372G (GTT→GGT)	gntU	gluconate transporter, low affinity GNT 1 system
Reads supporting (aligned to +/- strand):  ref base A (3/3);  new base C (0/9);  total (3/12)
Fisher's exact test for biased strand distribution p-value = 4.40e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.74e-03

TCGCGCCGGTAAATTTACCGAACAACCAGAAACCGGCGTCGTTAACGTGGCTGACAACAATCGAACCACCAGCGATACAAATCGACAGCGCCGCCATTTGCGCACCGGAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGTTAACGCTTCGCCCAGTGCCGGAC  >  NC_000913/3575819‑3576085                                                                                                                                 |                                                                                                                                           tCGCGCCGGTAAATTTACCGAACAACCAGAAACCGGCGTCGTTAACGTGGCTGACAACAATCGAACCACCAGCGATACAAATCGACAGCGCCGCCATTTGCGCACCGGAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTAccgc                                                                                                                      <  1:372424/151‑1 (MQ=255)          aaattttCCCGAACAACCAGAACCCGGGGTCGTAAAGGGGGCTAAAACCAATCGAACCCCAGGCAATACAAGTCGACAGCGCCGCCATTTCCCCACCGGAGTAGTTCAGTTGTTAAATACCCGGCATCCCCAGCCCTACCGCCGTTAAAc                                                                                                              <  1:372265/146‑1 (MQ=255)                           caaaacccGGCTTCGTTAACGTGGCTGACAACAATCAACCCACCAGCAATACAAAGCGACAGCGCCGCCTTTTGCCCACCGGAGTATTCCGGTTGTTAAATACCCGGCACCCCCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAAc                                                                                            <  1:74960/145‑1 (MQ=255)                                cccGGCGTTGTTAACGTGGCTAACAACAATCGAACCACCGGCGATAAAAATCGACAGCGCCGCCATTGGCGCCCCGGAGTAGTTCATTTTTTCAATACCCGGCACCACAAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGa                                                                                       <  1:195778/150‑1 (MQ=255)                                     ggtcataaaCGTGGGGGAAAACAGTCGACCCCCCACCAATAAAAACCGACGCCGCCCCCATTTGCGCCCCGAAGTAGTTCAGTTTTAAAATACCCGCCACCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAatga                                                                                   <  1:408738/143‑1 (MQ=255)                                                                aaccccaggcaaaaaaaaCCGCCAGCCCCCCCTTTGCCGCCCCGGATTAGTACAGTTTTTAAAAACCCGGCATCCCCAGTCCTACCGCCGGTAAACAGGCCACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGc                                                        <  2:98047/135‑1 (MQ=255)                                                                          aaTACAAACCGACACCGCCGCCATTTGCCCCCCGGAGTAGTTCAGTTTTTAAATACCCGCCCCCCCCAGCCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGc                                              <  1:377668/149‑1 (MQ=255)                                                                                aaccaaccgcgcCCCCTTTTGCCCCCCGGGGTATTTCAGTTGTTAAAAAACGGGAACCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGc                                       <  2:205756/143‑1 (MQ=255)                                                                                aaTCGACAGCGCAGCCATTTGCGCACCGGAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGAGATAGCAACCgg                                        >  2:12307/1‑150 (MQ=255)                                                                                          cccaccttttGCGCACCGGAGTTGTTAAGTTTTTAAATAACCGGCATCCCAGGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGc                             <  1:2129/144‑1 (MQ=255)                                                                                                     cgcACCGGAGTAGTTAAGTTGTACAATACCCGGCATCCCCGTTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGTTAACGc                   <  1:106147/150‑1 (MQ=255)                                                                                                         ccGGAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCCCTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGCTACCGCTTCg               >  2:110534/1‑150 (MQ=255)                                                                                                            gattatttCATTTTTACAATACCCGGCATCCCCAGCCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGTTAACGCTTCGccc            <  1:186593/144‑1 (MQ=255)                                                                                                            gAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGAAGCTGCCAGCACGAAGCAGGAGATAGCAATCGGCAGGCCCATGCCGGTTAACGCTTCGCCCa           >  2:69486/1‑151 (MQ=255)                                                                                                                     atttgttCAATACCGGGCATCACCACTCCTCCCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGTTAACGCTTCGCCCAGTGCCGGAc  <  1:324849/149‑1 (MQ=255)                                                                                                                                 |                                                                                                                                           TCGCGCCGGTAAATTTACCGAACAACCAGAAACCGGCGTCGTTAACGTGGCTGACAACAATCGAACCACCAGCGATACAAATCGACAGCGCCGCCATTTGCGCACCGGAGTAGTTCAGTTGTTCAATAACCGGCATCACCAGTCCTACCGCCGTTAAACAGGCTACGGTGGCAGAACCCTGAATGATGCGCACTGCAGCTGCCAGCACGAAGCAGGTGATAGCAATCGGCAGGCCCATGCCGGTTAACGCTTCGCCCAGTGCCGGAC  >  NC_000913/3575819‑3576085

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑