Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	345,328	0	C	A	40.5%	50.7 / 18.0	37	intergenic (+337/‑76)	yahL/yahM	uncharacterized protein/uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base C (18/4);  new base A (0/15);  total (18/19)
Fisher's exact test for biased strand distribution p-value = 5.01e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCTGCAAAGT  >  NC_000913/345181‑345466                                                                                                                                                    |                                                                                                                                           aaaaTGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCaaa                                                                                                                                         <  1:219766/151‑1 (MQ=255)   aaTGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCaaaa                                                                                                                                        >  2:455295/1‑150 (MQ=255)     tGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAAcc                                                                                                                                     >  2:10049/1‑151 (MQ=255)     tGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAAcc                                                                                                                                     >  2:521332/1‑151 (MQ=255)        tctcATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGcc                                                                                                                                  >  1:28027/1‑151 (MQ=255)           cATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCa                                                                                                                                 <  1:663322/149‑1 (MQ=255)                   tGTTTTGTGAATGTGTTGGTGGACATTCATATGAAAAAAATCATAATTCCATTATGTTTGTGTGGGGTTTTTTCTGTATCTTCCCCATCCCACTCAAGCCGAACAAAAAATATGCTTTAAGGCTAATATCAAAAACCGCCATTAGCt                                                                                                                           <  1:155074/147‑1 (MQ=255)                          tgAATGTTTTGGTTGACATTCATATGAAAAAAATCATAATCCCATCATTTTGGGGTGGGGTTTTTTCTGTATCTTACACATCGCACTCAAGCCTAAAAAAAAATATGCTGAAAGGCTCATATAAAAACCCGCCATTAGCTCATCAGGaa                                                                                                                  <  1:429438/149‑1 (MQ=255)                            aaTGTTTTGTTTGACATTAATATAAAAAAAATCATAATCCCATCTTTTTTGTGGGGGGTTTTTTCTGTATCTTACGCATCCCACTCAGGCCTGAAAAAAAATATGCTGTAAGGCTCATATAAAAAACCGCCATTAGCTCATCAGGaa                                                                                                                  <  2:417421/147‑1 (MQ=255)                                    ggttgACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAgacgac                                                                                                       >  2:629064/1‑150 (MQ=255)                                        gACATTAATATAAAAAAAATAATAATTCCCTCATGTTTGTGTGGGTTTTTTTCTGTATCTTCCGCCCCCCACTAAAGCCGAACAAAAAATATGCTGAAAGCCTAATAAAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCa                                                                                                  <  1:156312/151‑1 (MQ=255)                                            ttCATATAAAAAAAATCATAATCCCATCATGTTTGTGTGGGGTTTTTTCTTTATCTTACGCACCGCCCTCAGGCCTGACAAAAAATATGCTGAAAGGCTAAAATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAAc                                                                                                    <  1:445026/145‑1 (MQ=255)                                             tCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGAtt                                                                                             >  1:275981/1‑151 (MQ=255)                                                    aaaaaatTAAAAATCCCATCATGTTTGTTGGGGTTTTTTTGTGTATTTAACCCATCGCCCTCAAGCCGGAAAAAAAAAAGGCTGAAGGGCTAATAAAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGAttgtt                                                                                          <  1:334077/147‑1 (MQ=255)                                                    aaaaaaaTCATAATCCCATCATTTTTGTGTGGGGTTTTTTCTTTATTTACCGCATCCCACCCAAGCCTAAAAGAAAATAGGCTGAAGGGCTAATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTAt                                                                                      <  1:34231/151‑1 (MQ=255)                                                      aaaaaTCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATgg                                                                                    >  1:188211/1‑151 (MQ=255)                                                      aaaaaTCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATgg                                                                                    >  2:333878/1‑151 (MQ=255)                                                            caaaaTTCCAACAAGTTTGTGTGGGGTCTTTTCTGTATCTTACGTACCGCACTCAAGCCTGACAGAAATTATGCTGTACGTCTCTTATCAAAAACCGCCATTATCTCATCAGGACGAGCAGACGAGAACCAGGGGTGATGTAtttt                                                                                   >  1:523347/4‑143 (MQ=255)                                                            cATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACggg                                                                              >  2:454841/1‑151 (MQ=255)                                                                 ttCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCg                                                                         >  2:110487/1‑151 (MQ=255)                                                                    catcatGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAgg                                                                      >  1:277749/1‑151 (MQ=255)                                                                     atattGTTTTTGGGGGTTTTTTTTTTTATCTTCCCCATCGCACCCAGGCCTAAAAAAAAATATGCTGTAAGGCTCATACAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCg                                                                         <  1:15918/143‑1 (MQ=255)                                                                           tttGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGAt                                                               >  2:294020/1‑151 (MQ=255)                                                                                gtgGGGTTTTTTCTTTTTCTTACCCATCCCACCAAAGCCTGAAAAAAAATATGCTGTAAGCCTAAAATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGc                                                            <  2:390332/149‑1 (MQ=255)                                                                                 tgGGATTTTTTTTGTTTTTTACGCCCCGCCCTCAAGCCTAACAAAAAATAGGTTATAGGGCTCATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGc                                                            <  1:535649/148‑1 (MQ=255)                                                                                  gggtttttttCTTTATCTTACCCATCGCCCTCAAGCCTGAAAAAAAATATGCTGAAAGGCTCAAATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGt                                                         <  1:217584/144‑1 (MQ=255)                                                                                  gggtTCTTTTCTGTATCTTACCCACCGCACTCACGCCTGACAAAAAATATGCTGTAAGGCTCATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCgg                                                          <  2:336491/149‑1 (MQ=255)                                                                                       cTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACt                                                   >  2:360243/1‑151 (MQ=255)                                                                                                             cacacaAGCCGGAAAAAAAATATGCTGTAAGGCTCATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGaa                                 <  2:60872/147‑1 (MQ=255)                                                                                                              aCTCAAGCCTGAAAGAAAATATGTTGTAGGGCTCATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACtctt                                      <  1:521073/141‑1 (MQ=255)                                                                                                                tCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATc                               >  2:657229/1‑146 (MQ=255)                                                                                                                       tGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCttat                   >  1:289784/1‑151 (MQ=255)                                                                                                                          aaaaaaaTATGTTGAAAGGCTAATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTtattat                <  1:655260/148‑1 (MQ=255)                                                                                                                                 tatGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCt         >  1:30932/1‑151 (MQ=255)                                                                                                                                    gCTGAAAGGCTAATAAAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCt         <  2:114898/148‑1 (MQ=255)                                                                                                                                     cTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCTGCa      >  1:192123/1‑150 (MQ=255)                                                                                                                                           ggCTAATATAAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGGTTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCTGCAAAGt  <  2:329752/148‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                           AAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGACATTCATATGAAAAAAATCATAATTCCATCATGTTTGTGTGGGGTCTTTTCTGTATCTTACGCATCGCACTCAAGCCTGACAGAAAATATGCTGTAAGGCTCATATCAAAAACCGCCATTAGCTCATCAGGAAGAGCAGACGACAACCAGGATTGTTGTATGGTACGGGGTTCGAGGCCTCGATGGCGGTCCAACTTTTCAAAACTCTTCTGAATCAGATCCCCTTATTATCATCCCTGCAAAGT  >  NC_000913/345181‑345466

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑