Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,097,581	0	A	G	46.3%	53.6 / 14.4	42	noncoding (72/88 nt)	serX	tRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base A (3/19);  new base G (19/0);  total (23/19)
Fisher's exact test for biased strand distribution p-value = 8.01e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACTTTTTGAAA  >  NC_000913/1097439‑1097729                                                                                                                                               |                                                                                                                                                     tGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGTTCGAAcc                                                                                                                                              >  2:892452/1‑151 (MQ=18)         cGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAACCCCCGATa                                                                                                                                       >  2:673350/1‑150 (MQ=255)              tGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGGAcccccccaacgtt                                                                                                                                   >  2:889335/1‑141 (MQ=1)              tGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTCAGGGGGGGGTTCGGACCTCCCCTACgct                                                                                                                                   >  1:954857/1‑147 (MQ=11)               gTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGtt                                                                                                                                   <  1:473465/148‑1 (MQ=255)                 ccAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCg                                                                                                                               <  1:784633/150‑1 (MQ=255)                    aCTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGtata                                                                                                                           <  2:551731/151‑1 (MQ=255)                    aCTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCCCTACGTTGCCGtat                                                                                                                            >  2:790747/1‑150 (MQ=255)                      tGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCATACGTTTcc                                                                                                                                >  1:449894/1‑144 (MQ=255)                       ggCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATac                                                                                                                          <  1:725249/149‑1 (MQ=255)                              gCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTc                                                                                                                  <  2:990827/150‑1 (MQ=255)                                 aGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAgg                                                                                                              <  2:841012/151‑1 (MQ=255)                                           ccccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCt                                                                                                     <  1:245375/150‑1 (MQ=255)                                            cccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGAACCCCCCATACGTTGCCGTATACAAACTTTCCAGGGGTGCTcc                                                                                                      >  2:582103/1‑148 (MQ=255)                                                   ggggCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCCATACGTTGTCGTATAAACACTTTTCCGGCGGGCTCCTTCCGcccc                                                                                             >  2:116056/1‑148 (MQ=17)                                                    gggCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTc                                                                                           <  2:147016/151‑1 (MQ=255)                                                      gCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCgg                                                                                         <  1:573399/151‑1 (MQ=255)                                                                       tgtgtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCCTACGTTGCCGGATACACACTTTCCAGGCGGGCTCCTTCAGCCACTCGGACACCCCACCCAAtttt                                                                        >  2:713375/1‑149 (MQ=14)                                                                          gtgCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCCGACACCTCACCCAATTGTCGt                                                                     >  1:201611/1‑151 (MQ=255)                                                                                 ataCGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCCCTACGTTTCCGTATACACACTTTTCCGGCGTGCTCCCTCCGCCCCCCCGGCACCCCCCCAAATTTTCGTTTCt                                                                 >  2:921412/1‑148 (MQ=14)                                                                                     gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCCCTACGTTTCCGGATACACACTTTTCAGGCGTGCTCCCTCAGCCACCCGGGCACCCCCCCCAAATTTCGTTCCTTTCtt                                                            >  1:445309/1‑149 (MQ=14)                                                                                     gAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCATACGTTGCCGTATACACACTTTTCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCtt                                                            >  1:184538/1‑149 (MQ=255)                                                                                            aaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCCTACGTTTCCGTTTACACACTTTCCAGGCGTGCGCCTTCACCCACCCGGGCAACCCCCCAAATTTTCCTTTCTGTCTTTCTggga                                                     >  2:713840/1‑147 (MQ=14)                                                                                             aGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAACCCCCCATACGTTGCCGTATAAACACTTTTCAGGCGTGCTCCTTCAGCCCCTCGGACACCCCACCAAAATTTCGTTCCTGTCTTGCTGGAACgg                                                  >  1:719916/1‑151 (MQ=17)                                                                                                    aCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGTTTGAACCCCCCATACGTTTCCGTATACAAACTTTTCAGGGGGGCTCCCTCAGCCCCTCCGGCACCCCACCCAATTTTCGTTTCTGTCTTTCTGGGACggg                                                 >  2:379257/1‑145 (MQ=9)                                                                                                    aCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTa                                            <  1:237848/150‑1 (MQ=255)                                                                                                      tttCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGATTCGGACCCCCCGTACGTTTTCGTATTAACACTTTTCAGGGGTGTTCCTTCTACCCCCCGGGCACCTCACCAAATTATCGTTCCTCTTTTGGTGGAACGGGGGCTAAtt                                         >  1:269764/1‑151 (MQ=9)                                                                                                         cGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTAACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAAttt                                        <  1:741701/149‑1 (MQ=255)                                                                                                          gTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGTTTGAACCCCCCATACGGTGCCGGATACACACCTTCCACGCGGGCTCCCTCAGCCCCTCGGACACCTCCCCAAAATTTCGTTTCTGTCTTTCTGGGACGGGCGCCAAttt                                        >  1:152973/1‑148 (MQ=14)                                                                                                            aCGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGa                                   <  2:954761/151‑1 (MQ=255)                                                                                                             cGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCCCTACGTTGCCGTATACACACTTTTCCGGCGGGCTCCTTCAGCCCCCCCGACACCCCACCAAATTTTCGTTTCTGTCTTTCTGGGACGGGCGCTAATTTTgggg                                   >  1:50850/1‑149 (MQ=17)                                                                                                              gAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGaaa                                 <  1:45034/151‑1 (MQ=255)                                                                                                                 ctctTCTTTAAATATGGCGGTGAGGGGGGGGTTCGGACCCCCCATACGCTGCCGTTTAAACACTTTCCAGGCGGGGTCCTTCAGCCACTCGGACACCTCACCAAATTTTTGTTTCTGTCCTGCTGGAAACGGCGCTAATTTTGGGaa                                  >  1:516223/1‑147 (MQ=14)                                                                                                                     tcttTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGa                           <  2:8879/150‑1 (MQ=255)                                                                                                                      cttTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCATAAGTTTCCGTATACACACTTTTCAGGCGTGCTCCTTCAGCCCCCCGGACACCCCCCCAAAATTTCGTTCCTTTCTTGCTGGAAAGGGCGCCAATTTTGGGGAATCATGAcc                         >  2:853324/1‑151 (MQ=17)                                                                                                                        ttAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCt                        <  2:442306/150‑1 (MQ=255)                                                                                                                        ttAAATATGGCGGTGA‑GGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTg                       <  1:567840/150‑1 (MQ=255)                                                                                                                         tAAATATGGCGGTGAGGGGGGGCTTTGAACCCCCCATACCTTGGCGTACACCAACTTTTCACGCGTGCTCCCTCAGCCACCCGGGGACCCCACCAAAATGTCGTTCCTTTCCTTTTTGGACGGGCCCCTATTTTGGGGAATCa                              >  2:1015218/1‑143 (MQ=2)                                                                                                                                      gAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACtt         >  2:456168/1‑151 (MQ=255)                                                                                                                                        gggggggATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACtttt       <  1:536052/151‑1 (MQ=255)                                                                                                                                         ggggggATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACttttt      <  2:309117/151‑1 (MQ=255)                                                                                                                                             ggATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACTTTTTGaaa  <  2:147225/151‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                     TGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATATACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTCGTTCCTGTCTTGCTGGAACGGGCGCTAATTTAGGGAAATCATGACCTGAGGTCAACAAACTTTTTGAAA  >  NC_000913/1097439‑1097729

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑