Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,222,596	0	G	A	37.5%	45.9 / 21.9	40	F13F (TTC→TTT)	ymgD	uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (22/3);  new base A (0/15);  total (22/18)
Fisher's exact test for biased strand distribution p-value = 2.03e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAACGCTGGCATTACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTGACAGCACC  >  NC_000913/1222448‑1222745                                                                                                                                                     |                                                                                                                                                      cAACGCTGGCATTACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGaa                                                                                                                                                     <  2:331335/151‑1 (MQ=255)     gCTGGCATTACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGCTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAaaac                                                                                                                                                  >  1:77358/1‑150 (MQ=255)           attacccattaccGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAgg                                                                                                                                           >  2:547042/1‑151 (MQ=255)              acccattaccGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGccc                                                                                                                                        >  1:150980/1‑151 (MQ=255)                          aacatTTTCTGCAACCTGTGCGCTGTCTTTTTTTCCCTTTTCGTTGGCTTCTGCGAAAGTAATATAGGTTTCTGACGGCAAACCTTTTTTAATATTGTAGTCCTGCGCCCAGGTCTTTGGTGAGAAAACAAACAGGCCCGCCAGTAAAGCa                                                                                                                            <  1:118296/151‑1 (MQ=255)                          aacaaTTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCAAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGc                                                                                                                             >  1:137604/1‑150 (MQ=255)                                ttCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATCTAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAAtttt                                                                                                                      >  2:193179/1‑151 (MQ=255)                                     cAACCTTTGCGCTGTCATTTTTTGCCTTTTCGTTGGTTTCTGCGCAAGTAATATAGGTTTCTGACGGAAACCCTTTTTTAATTTTGTAGCCCTGCCCCCAGGTTATTGGTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTtca                                                                                                                  <  2:420907/150‑1 (MQ=255)                                     cAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTtcat                                                                                                                 >  2:50644/1‑151 (MQ=255)                                      aaCCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTtcatc                                                                                                                >  1:254880/1‑151 (MQ=255)                                        ccTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTtcatcat                                                                                                              >  2:556223/1‑151 (MQ=255)                                          tgtgCGCTTTCATTTTTTGCCATTTCGTTGTCTTCGGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATTTGGTAGTCCTGCGCCCAGGTATTGGGGGCAAAACCAAACAGCCCCGCCAGTAAAGCAAATTTTTtcatcat                                                                                                              <  2:541954/149‑1 (MQ=255)                                             gcgcTGTCATTTTTTCCCTTTTCGTTGGTTTCTGCGAAAGTAATATAGTTTTCTGACGGCAAACCTTTTTAAATATTGTAGCCCTGCGCAAAGGTCATTGGTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCAtt                                                                                                          <  2:137642/150‑1 (MQ=255)                                                 tGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCtt                                                                                                      >  2:163385/1‑150 (MQ=255)                                                     aGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTc                                                                                                 >  1:503083/1‑151 (MQ=255)                                                       tttttGCCTTTTCGTTGGTTTCTGCGAAAGTAATATGGGTTTCTGACGGCAAACCTTTTTAAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTc                                                                                                 <  2:142853/149‑1 (MQ=255)                                                       tttttCCCATTTCGTGGGCTTCGGCGAAAATAATATAGGTTTCGGGCGGCAACCCGTTTTTAATATTGTGTTCCCGCCCCCGGGTAATTGGTGGAAAAACAAAAGGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCa                                                                                                <  2:355849/150‑1 (MQ=255)                                                        ttttGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCAtt                                                                                              >  1:44072/1‑151 (MQ=255)                                                           tGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCAtttt                                                                                            >  2:258455/1‑150 (MQ=255)                                                                 ttCGTTGGTTTTTGCGAAAGTAATTAGGGTTTCTGCCGGCAACCCTTTTTTAATTTTGTAGTCCTGCCCCCAGTTCTTTGGTGCAAAAACAAACAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAg                                                                                      <  2:516631/150‑1 (MQ=255)                                                                 ttCGTTGGTTTCTGCGCAATTAATATAGGTTTCTGACGGAAACCCTTTTTTAATATTGTAGTCCTGCCCCCAGTTTTTTGGTGCAAAAACAAACAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAg                                                                                      <  1:288297/150‑1 (MQ=255)                                                                      tGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGc                                                                                >  2:449284/1‑151 (MQ=255)                                                                        gCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGcac                                                                              >  1:472120/1‑151 (MQ=255)                                                                          ttCTGCGAAAGTAATATAGTTTTCTGACGGAAAACCTTTTTAAATTTTGTAGCCCTGCCCCAAGTTCTTGGGTGGAAAAAAAAACGGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGca                                                                               <  2:788792/148‑1 (MQ=255)                                                                           tCTGCGCAAGTAATATGGTTTTCTGACGACAACCGTTTTTTAATATTGTAGTCCGGCCCCCAGGTCATTGGTGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGcacca                                                                            <  2:506275/150‑1 (MQ=255)                                                                              gcgcAAGTAATATAGTTTTCTGACGGCAACCCTTTTTAAATTTTGTAGTCCGGCGCCCAGTTCTTTGGTGCGAAAACAAACGGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTCATTTCATTTTACCCAGAATTGCACCAccc                                                                         <  1:197802/150‑1 (MQ=255)                                                                                  aaGAAATATAGGTTTGTGAGGGCAACCGGTTTTTAATATGGTAGCCCTGCGCCCAGGTCATGGGGGCAAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGcaccac                                                                           <  2:671296/144‑1 (MQ=255)                                                                                   aGTAATATAGGTTTCTGACGGCAACCCTTTTTTAATATTGTAGCCCTGCGCCCAGGTCTTTGGTGCAAAAAAAAACGGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCg                                                                   <  2:565074/151‑1 (MQ=255)                                                                                      aaTATAGTTTTCTGCCGGCAACCCTTTTTTAATTTTGTACTCCTGCCCCCAGGTCTTTGGTGAAAAAACAAACGGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCg                                                                   <  2:597303/148‑1 (MQ=255)                                                                                                tCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCAc                                                      >  1:622281/1‑151 (MQ=255)                                                                                                     cGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCttt                                                  >  2:748091/1‑150 (MQ=255)                                                                                                                  ttAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCg                                     >  2:39323/1‑150 (MQ=255)                                                                                                                   tAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCg                                     >  2:286317/1‑149 (MQ=255)                                                                                                                        tagTATTCCTCCCCCCAGATCTTGGGTCCAAAAACAAGAAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGcc                                <  2:630798/147‑1 (MQ=255)                                                                                                                           tAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGc                           >  1:216705/1‑151 (MQ=255)                                                                                                                             gccccgcgcgcGGGTTATTGGTGGAAAAAAAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCTTACCGCCAATCACGGCACCTTTAATCGCCCCTACGAGGCCAtt                             <  1:157646/142‑1 (MQ=255)                                                                                                                                ccccccccagttatttGGTGAAAAAACAAACAGCCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTc                      <  1:213975/137‑1 (MQ=255)                                                                                                                                       cAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGc               >  1:541758/1‑151 (MQ=255)                                                                                                                                             aTTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTg          >  2:473738/1‑150 (MQ=255)                                                                                                                                                  tGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTGa         >  1:404698/1‑146 (MQ=255)                                                                                                                                                     gAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTGACAGCAcc  >  2:121100/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                      CAACGCTGGCATTACCCATTACCGCAACAATTTCTGCAACCTGTGCGCTGTCAGTTTTTGCCATTTCGTTGGCTTCTGCGCAAGTAATATAGGTTTCTGACGGCAAACCGTTTTTAATATTGTAGTCCTGCGCCCAGGTCATTGGTGCGAAAACAAACAGGCCCGCCAGTAAAGCAAATTTTTTCATCATCATTCCTTATTTCATTTTACCCAGAATTGCACCACCCGTACCGCCAATCACGGCACCTTTAATCGCCCCTTCGAGGCCATTGCCGGTCAGAACGCCAGTGACAGCACC  >  NC_000913/1222448‑1222745

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑