Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	925,900	0	A	G	54.8%	42.8 / 57.5	43	noncoding (72/88 nt)	serW	tRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base A (3/16);  new base G (23/0);  total (27/16)
Fisher's exact test for biased strand distribution p-value = 5.82e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.82e-08

GAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAAT  >  NC_000913/925751‑926050                                                                                                                                                      |                                                                                                                                                          gAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCCCTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGa                                                                                                                                                           <  2:780641/150‑1 (MQ=255)       aCTGCCGTACAGGCAGCTTAGAAATTCACAGTTAACATACGCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATTGCGGTGAGGGGGGGATTCGAAc                                                                                                                                                    <  1:299117/151‑1 (MQ=255)           ccGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAAccccc                                                                                                                                                >  2:793465/1‑151 (MQ=255)              tACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGaaacacc                                                                                                                                                >  1:695900/1‑143 (MQ=255)              tACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGGGGGGGGGTTTTGGAcccccc                                                                                                                                               >  1:239069/1‑148 (MQ=38)                    cAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGTTAGAAacccccccacgtt                                                                                                                                        >  1:741891/1‑142 (MQ=37)                    cAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGGACCCCCCATACGt                                                                                                                                         >  2:288510/1‑149 (MQ=255)                         tAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAACCCCCGAAACGTTGcc                                                                                                                                     >  2:144812/1‑148 (MQ=255)                          aGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGAACCCCCCCTACGTTGCCGtat                                                                                                                                 >  2:809730/1‑151 (MQ=255)                                    aGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAAACCCCCATACGTTTCCGTATACA‑C‑ACctt                                                                                                                      >  1:419000/1‑150 (MQ=25)                                    aGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGAtt                                                                                                                                                         <  2:178238/117‑1 (MQ=255)                                              cTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGGACCCCCCCCACGGTTCCGTCTACA‑C‑ACTTTCCCgggg                                                                                                               >  1:246701/1‑145 (MQ=21)                                                ccACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGGACCCCCGATACGTTGCCGGATACA‑C‑ACTTTTCAGGCGGGCGcc                                                                                                         >  1:794869/1‑151 (MQ=21)                                                  aCCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCtt                                                                                                       <  1:809680/151‑1 (MQ=255)                                                      gCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAAACCCCCATACGTTGCCGGATACA‑C‑ACTTTCCCGGCGGGCTCCTTc                                                                                                      >  2:18873/1‑148 (MQ=18)                                                           ccaTGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTc                                                                                              <  2:440684/151‑1 (MQ=255)                                                            caTGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCg                                                                                             <  1:384179/151‑1 (MQ=255)                                                                 tCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAAACCCCCCTACCTTGCCGTTTACA‑C‑ACCTTTCCGGGGGGGTCCTTCCGcccccccgac                                                                                          >  1:534774/1‑141 (MQ=17)                                                                      gCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAACCCCCCATACGTTTCCGTATAAC‑C‑ACCTTTCCGGCGCGGTCCCTccgccaccccgcca‑cc                                                                                      >  2:630623/1‑147 (MQ=17)                                                                         gTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAACCCCCCATACGGTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCCGCCCCTCGGACA‑CCTCAcc                                                                                 >  2:520224/1‑149 (MQ=17)                                                                              gacagaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGt                                                                          <  2:627681/151‑1 (MQ=255)                                                                                      aaaTGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGGTTCGAAACCCCCATAAGCTGCCGTATAAA‑A‑ACCTTTTCGGCCTGCTCCTTCTGCCACTCCGACACCCCCACCAAA‑TGTTTTTCt                                                                    >  1:53539/1‑149 (MQ=2)                                                                                           cGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGGACCCCCCATACGGTGCCGGATAAA‑C‑ACATTCCAAGGGGGGGCCCTCAGCCCCCCCGGGA‑CCCCCCCAAAAAGTTTTTTTACCaaa                                                              >  2:160004/1‑150 (MQ=2)                                                                                             aaaaaaaaGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGAGGTGAAGGGGGGGATCGGACACCCGCGACGGTAGCGGATACACC‑ACTTTTAAGGC‑TGGCCCTTCAGCCACCCCGACA‑CCTCAACAAATTGTTTTTCTAACAAAc                                                             >  2:545217/1‑149 (MQ=9)                                                                                                 aaaaGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATg                                                       <  2:803465/151‑1 (MQ=255)                                                                                                    aGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGCGAGGGGGGGGTTCGAACCCCCCACACGTGGCCGTATAAA‑C‑ACTTTCCCGGGGGGTTCCCTCAGCCACCAGGTCACCCCCCCCAAATTTTTTTGTTCCCaccccactggg                                                      >  1:415547/1‑140 (MQ=2)                                                                                                     gCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGCACCCCCCAAACGTTGCCGTATAAA‑C‑CCCTTTCAAGGGTGGCCCCTCCACCACCCGGCCA‑CCTCACCAAATTGTTTTTCTAACAAACCTACTGGGTg                                                   >  2:747672/1‑151 (MQ=9)                                                                                                         gCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGGACCCCCCCTACGTTTCCGTATAAA‑CAACTTTCC‑GGCGTGCCCCTTCCGCCACCCCGGCA‑CCCCCCCCAAATTTTTTTCTTCCCAAcccccttggg                                                    >  2:423536/1‑138 (MQ=2)                                                                                                            cTTTCGTACGAGCTCTTCTTTAAATATGGCGGGTTGGGGGGGGGTTGAAGCCCCGATGCCTTTCCCTATATA‑A‑ACTTTCCCAGCGGGCCCCCTCAGCCACTCCGACC‑CCTCCCCCAAATGTTTTTCTTCCAAACCCCCCAGGTGGCaa                                               >  1:234754/1‑148 (MQ=2)                                                                                                               tCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACgggg                                          <  1:401911/150‑1 (MQ=255)                                                                                                                  tACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGgcg                                        <  1:494737/149‑1 (MQ=255)                                                                                                                  tACGAGCTCTTCTTTAAATATGGCGGCGATGGGGGGGTTCCAAACCCCCGTACGTTTCCGTATACA‑C‑ACTTTCCAGGCGGGCTCCTTCAGCCCCTCCGACA‑CCCCCCCCAATTTTTTTTTTTCCAAACCTCCCTGGTTGCAAAGGGgggc                                       >  1:304952/1‑150 (MQ=2)                                                                                                                   aCGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGAACCCCCCATACGTTTCCGTATACA‑C‑ACTTTTCCGGCGGGCGCCTTCAGCCACTCGGGCA‑CCTCCCCCAAATGTTTTTCTACCCAACCCCATGGGGGGCAACGGGgcg                                        >  2:540645/1‑148 (MQ=14)                                                                                                                      aGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGGTTGAACCCCCCATACGTTTTCGTATAAA‑C‑ACTTTCCAGGCGGGGTCCTTCCGCCACCCGGACA‑CCCCACCAAAATTTTTTTCTACCAAAACCCCTGGGGGGCAACcgg                                           >  1:3663/1‑142 (MQ=9)                                                                                                                      aGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAAACCCCCCCACCTTTTCGTATACA‑C‑ACCTTTCCGGGGGGGTCCTTCCCCCCCCCGGGCA‑CCCCACCCAAATGTTTTTCTAACAAACCCCATGGGGGGCAAAgggg                                          >  1:165610/1‑143 (MQ=9)                                                                                                                            tcttTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAg                               <  2:240524/148‑1 (MQ=255)                                                                                                                                   atatGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAg                     <  1:126000/151‑1 (MQ=255)                                                                                                                                      tGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTa                   >  1:96455/1‑150 (MQ=255)                                                                                                                                          ggTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACg              <  2:120524/151‑1 (MQ=255)                                                                                                                                             gAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGt            <  1:659930/150‑1 (MQ=255)                                                                                                                                                 gggggATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCaaga       <  2:419031/151‑1 (MQ=255)                                                                                                                                                  ggggATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCaaga       >  2:685592/1‑150 (MQ=255)                                                                                                                                                    ggATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAagaaga    <  1:807363/151‑1 (MQ=255)                                                                                                                                                    ggATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAagaaga    <  1:113295/151‑1 (MQ=255)                                                                                                                                                      aTTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCGAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAAt  <  2:698544/151‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                          GAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACA‑C‑ACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACA‑CCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAAT  >  NC_000913/925751‑926050

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑