Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,222,596	0	G	A	44.1%	26.7 / 17.2	34	F13F (TTC→TTT)	ymgD	uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (14/5);  new base A (0/15);  total (14/20)
Fisher's exact test for biased strand distribution p-value = 9.80e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTG  >  NC_000913/1222460‑1222737                                                                                                                                          |                                                                                                                                              tacccattaccGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGc                                                                                                                                  <  1:810546/150‑1 (MQ=255)    ccattaccGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGc                                                                                                                              <  1:410732/151‑1 (MQ=255)             caacaaTTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGc                                                                                                                     >  2:298190/1‑151 (MQ=255)             caacaaTTTCTGCAACCTGTGCGCTGTCAGATTTTGCCATTTCGTTGGCTTCTGCGCAAGTACTATAGGTTTCTGCCGGCAAACCGTTTTTAATATTGTAGTCTTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAg                                                                                                                      >  2:525272/1‑150 (MQ=255)                 aaTTTCTGCAACCTGTGCGCTTTCATTTTTTCCCATTTCGTTGGCTTCTGCGCAAGTAATATAGTTTTCGGACGGCAAACCTTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACGGGCCCGCCAGTAAAGCaaa                                                                                                                  <  2:331049/150‑1 (MQ=255)                          acccTGGGCTCTTTCATTTTTTCCTATTTCGTTGGTTTCTGCGCAAGTAATATAGGTTTCTGACGGAAACCCTTTTTTAATATTGTAGCCCGGCCCCCGGTTCTTTG‑GTGCAAAAAAAAACGGGCCCGCCAGTAAAGCAAATTTTTtcat                                                                                                         <  2:859285/148‑1 (MQ=255)                               gtgCGCTTTCATTTTTTGCCTTTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAACCCTTTTTTAATATTGTAGTCCTGCCCCCAGGTCATTG‑GTGCAAAAAAAAACAGGCCCGCCAGTAAAGCAAATTTTTtcatcatca                                                                                                    <  1:77535/150‑1 (MQ=255)                               gtgCGCTGTCTGTTTTTGCCTTTTCTTTGTCTTCTGCGCAAGTAATATAGGTTTCTGACGACAACCCTTTTTTAATATTGTAGTCCTGCCCCCAGGTTTTGG‑GTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTtcatcatc                                                                                                     <  2:366506/149‑1 (MQ=255)                                       tctttttttGCCTTTTCGTGGGCTTCTGCCCAAGTAATATAGGTTTCTGAGGGAAAACCTTTTTTAATATTGTAGTCCTGCGCCCAGGTATTTG‑GTGCAAAAAAAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTa                                                                                             <  1:398943/145‑1 (MQ=255)                                           tttttGCCTTTTCGTTGGTTTCTGCGCAAGTAATATAGGTTGCTGACGGCAAACCTTTTTAAATATTGTAGTCCTGCGCCCAGGTTTTTG‑GTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTc                                                                                         <  2:855218/149‑1 (MQ=255)                                           tttttGCCATTTCGTTGGCTTCTGCAAAAGTAATATAGTTTTCGGACGGCAAACCGTTTTTAATATTGTATTCCGGCGCCCAGGTTTTTG‑GGGCAAAAAAAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTAtt                                                                                           <  2:692172/147‑1 (MQ=255)                                           tttttCCCTTTTCGTTGTTTTCTCCAAAAGAAATATAGTTTTCTGACGGCAACCCTTTTTTAATTTTGTAGCCCGCCCCCCAGGTCTTTG‑GTGCAAAAAAAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTAt                                                                                            <  2:152363/146‑1 (MQ=255)                                            ttttGCCTTTTCGTTGGTTTCTGCGAAAGTAATATAGGTTTCTGACGGCAACCCGTTTTTAATATTGTAGTCCTGCCCCCAGGTCATTG‑GTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCAt                                                                                       <  1:775746/150‑1 (MQ=255)                                               tGCCTTTTCGTGGGTTTCTGCGAAAGTAATATGGTTTTCTGCCGGAAACCTTTTTTTAATATTGTAGCCCTGCCCCCGGGTCATTG‑GTGCAAAAAAAAACGGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCAtttt                                                                                    <  1:343376/150‑1 (MQ=255)                                                        gTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAAtt                                                                          >  2:311551/1‑151 (MQ=255)                                                          tGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGc                                                                        >  1:525263/1‑151 (MQ=255)                                                               tatgagcAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTAATGAGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGcacca                                                                    >  2:277824/6‑150 (MQ=255)                                                                 tGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCAccc                                                                 >  2:600537/1‑151 (MQ=255)                                                                   cgcAAATAATATAGGTTTCTGACGAAAACCCTTTTTTAATTTTGTAGTCCTGCGACCGTGTCTTTG‑TGGCAAAAACAAACCGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAAtt                                                                          <  2:494665/140‑1 (MQ=255)                                                                      aaGTAATATAGTTTTCTGACGGCAACCCTTTTTTAATATTGTAGCCCTGCGCCCAGGTCATTG‑GTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTAcc                                                            <  1:406796/151‑1 (MQ=255)                                                                          aaTATAGGTTTCGGACGGCAAACCGTTTTTAATATTGTAGCCCGGCCCCCAGGTCTTGG‑GTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCa                                                        <  1:144920/151‑1 (MQ=255)                                                                                       gACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCtt                                           >  2:147703/1‑151 (MQ=255)                                                                                              aaCCTTTTTAAATTTTTTACTCTGGCCCCCAGGTTTTGG‑GTGGAAAAAAAACCGGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCtt                                           <  2:116180/144‑1 (MQ=255)                                                                                              aaCCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCg                                     >  2:914732/1‑150 (MQ=255)                                                                                                ccGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGccc                                  >  2:27242/1‑151 (MQ=255)                                                                                                    ttttAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTc                              >  2:111217/1‑151 (MQ=255)                                                                                                     ttaaaTATTGTCTCCCTCCCCCAAGGTCATTG‑GTGAAAAAAAAACCAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTc                              <  1:745739/147‑1 (MQ=255)                                                                                                        aatttttttctcctccCCCCAGTTCATTG‑GTCCAAAAACAACCAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCg                             <  2:691463/138‑1 (MQ=255)                                                                                                             ttttagccTGCGACCCGGTTCTTGTGTGAGAAAACAAACAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCa                       <  2:166105/144‑1 (MQ=255)                                                                                                             tGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCAtt                     >  2:743900/1‑151 (MQ=255)                                                                                                                   ccggcccccAGGTATTTG‑GTGAGAAAAAAACCAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCgg                <  1:421732/144‑1 (MQ=255)                                                                                                                    cTGCGCCCAGGTCATTG‑GCGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTc              >  2:271822/1‑151 (MQ=255)                                                                                                                               tCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGTCGGTCAGAACGCCAGt   >  2:808797/1‑151 (MQ=255)                                                                                                                                 aTTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTg  >  1:558745/1‑150 (MQ=255)                                                                                                                                          |                                                                                                                                              TACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTG‑GTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTG  >  NC_000913/1222460‑1222737

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑