Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,246,518	0	T	G	57.9%	8.6 / 21.2	19	T287P (ACC→CCC)	treA	periplasmic trehalase
Reads supporting (aligned to +/- strand):  ref base T (0/8);  new base G (11/0);  total (11/8)
Fisher's exact test for biased strand distribution p-value = 1.32e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.36e-03

ACCGGTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTC  >  NC_000913/1246373‑1246668                                                                                                                                                  |                                                                                                                                                       aCCGGTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTTGGATTGCTTTTGGGGGGGGGaa                                                                                                                                                   >  2:389854/1‑151 (MQ=255)     gTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTTCTTTTGGCGGGGGCAatatt                                                                                                                                               >  1:337823/1‑150 (MQ=255)     gTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGGCGAATCGGCGTGCTTTTGGTGGGGGGCatatt                                                                                                                                               >  1:459826/1‑150 (MQ=255)     gTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGGTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGGCGATTCGGGTTGCTTTTGGCGGGGGCAatat                                                                                                                                                >  2:411593/1‑150 (MQ=255)                   gtgCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGAc                                                                                                                                  <  1:195762/150‑1 (MQ=255)                    tgCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGActc                                                                                                                                <  1:159262/151‑1 (MQ=255)                            gTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGGGGCAATATCTTTCACCCATGACTCTgggtgtg                                                                                                                        >  1:602499/1‑146 (MQ=255)                                        tgcGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGGCGATTCGGGTTGCTTTTGGCGGGGGGAAAATCTTTCCCCCCTGACTCTGGTCGGGGCGTTTcggggt                                                                                                            >  2:246699/1‑147 (MQ=255)                                                          cgcgAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTg                                                                                           <  2:525819/150‑1 (MQ=255)                                                                        ccagccagACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATcc                                                                            <  2:634462/151‑1 (MQ=255)                                                                                aCGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAg                                                                       <  1:169469/148‑1 (MQ=255)                                                                                aCGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGGCGATTCGGATTGCTTTTGGGGGGGGGAAAATCTTCCACCCATGACTCTGGGCGTGGCGTATCGCGATCGTCCCCGTAGCGGTTGAGAAGGGTACCCTCCTTAAGttt                                                                    >  1:48417/1‑151 (MQ=255)                                                                                   cAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGGGGGAATATCTTTCCCCCATTAATCTGGTCGTGGCGTATCGCGGTCGTCCCCGTAGCGGGTGAGAAGGGGAcccatctgtaatttgg                                                                  >  1:233109/1‑136 (MQ=255)                                                                                      cGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCCCCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGAc                                                                 <  2:348783/148‑1 (MQ=255)                                                                                        gCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGCTTCGGATTGCTTTTGGCGGGGGCAAAATCTTCCCCCCACGAATCTGGTCGTGGCGTATCGCGGTCGTCCCCGGAGCGGGTGAGAAGGGTACCCTCCTGAAGGTTGACCAcg                                                             >  2:242892/1‑150 (MQ=255)                                                                                             gcgcAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGGTTTTGGCGGGGGCAAAATCTTCCACCCCTGTCTCTTGGCGTGGCGTGTCGCGGGCGGTCCAGTTACGGTTGGGCAGGGGACCATCCCGAAGTTTGGCAACCCGgttt                                                       >  2:558681/1‑151 (MQ=255)                                                                                             gcgcAGGTCGCGGTAAATTTCAGTGGCAGGGCGATTCGGATTGCTTTTGGCGGGGGCAAAAACTTCCAACCATGACTCTGGGCGTGGGGTATCCGGATCGTCCCCGGAGCGGTTGAGAAAGGGAACATCCTGAAGTTTGACAACCCGgttt                                                       >  2:202990/1‑151 (MQ=255)                                                                                                                           tCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAac                          <  1:362709/150‑1 (MQ=255)                                                                                                                               ttCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGt                     <  1:372185/151‑1 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCGCCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTc  <  2:112242/151‑1 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATTACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTTAGCATAtt   >  2:637842/1‑150 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTTCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTc  <  2:522064/151‑1 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATAtt   >  1:374039/1‑150 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTc  <  2:553501/151‑1 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTc  <  1:246632/151‑1 (MQ=255)                                                                                                                                                  tGGCAATATCTTCCACCCATGACCCTGGTCGTGGGGTTTCGCGATCGTCCCAGTTGCGGTTGAGAAGGGTTCCATCCTTAAGTTTTACAAACCGTTTTTCCTGTTTTCCGGCTTGCAGGTTTTCCACACCGTCCATCCAGTAAGCATATTc  <  2:25801/151‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                       ACCGGTACGATGCTGGTGGTGCGTAAGGTATTTAACTGCTGCGGGTTGTCCATCCAGCGCGAGCTGAAATCCCAGCCAGACGCAGCGGCAGAGCGCAGGTCGCGGTAAATTTCAGTGGCAGGTCGATTCGGATTGCTTTTGGCGGTGGCAATATCTTCCACCCATGACTCTGGTCGTGGCGTATCGCGATCGTCCCAGTAGCGGTTGAGAAGGGTACCATCCTGAAGTTTGACAACGCGTTTTTCCTGTTGTCCGGCTTGCAGGTTTTCAACACCGTCCATCCAGTAAGCATATTC  >  NC_000913/1246373‑1246668

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑