Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,506,028	0	A	C	48.1%	84.0 / 11.1	52	V18G (GTA→GGA)	ydcO	BenE family inner membrane putative transporter
Reads supporting (aligned to +/- strand):  ref base A (25/2);  new base C (0/25);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 7.37e-13
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCATAATGTCAGAGTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGCCGGAGGAGTCGCATG  >  NC_000913/1505888‑1506174                                                                                                                                               |                                                                                                                                                   aCCATAATGTCAGAGTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGaaa                                                                                                                                          <  1:575025/151‑1 (MQ=255) aCCATAATGTCAGAGTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGaa                                                                                                                                           >  2:11159/1‑150 (MQ=255)     tAATGTCAGAGTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAAcccc                                                                                                                                      >  1:75068/1‑151 (MQ=255)             gagTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGt                                                                                                                                >  1:166331/1‑149 (MQ=255)             gagTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGt                                                                                                                                >  2:709885/1‑149 (MQ=255)                  aGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCgtgg                                                                                                                         >  2:579007/1‑151 (MQ=255)                       aCTGACGCCCATTGCCACCCCCGGCCCCGTCACCCGGCCAGAGTTTTGTGCAGTGGTGGCCCCGGCAACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCGGAAGTGGGGTAGCAAATAAAACCCGCCAGAACCCCCGCCAGTAGCgtgggtg                                                                                                                      <  2:369188/149‑1 (MQ=255)                            cccccTTTCCCCGCCCCAGCGCCGTCCTCCGGCGAGAGTTTGGGGGGGGGGGGGCTCGGGCGAAATTCGCTTCTTGCCAA‑ATTTTTG‑CCGTGGAATTGGGGAAGCCAATTAAACCCGCAAAAACCCCCGCCAGTAGCGTGGGTggag                                                                                                                   <  1:58722/145‑1 (MQ=255)                            cGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAAt                                                                                                               >  2:246643/1‑151 (MQ=255)                            cGCCCATTGCCACCCCCACCGCCGTCACCCAGCCAGAGTTTTGGGGGGGGGTGGCTCCGGCAAAAATCGCTGCTGGCCAG‑ATTATTG‑CCGCTGAGCGGGCGGAGCAAATTAATCCCGCCAAAAACCCCGCCAGTAGCGTGGGTggagg                                                                                                                  <  2:292449/148‑1 (MQ=255)                              cccATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAAt                                                                                                               >  2:120242/1‑149 (MQ=255)                                cATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGa                                                                                                            >  2:260645/1‑150 (MQ=255)                                  ttGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGaaa                                                                                                          >  1:383625/1‑150 (MQ=255)                                  tggccccccccGGCCCCTTCACCCGGCAAGAGTTTGGTGAAGGGGGGGCCCGGGCAACAATCGCTGCTTCCAAA‑TTTATTG‑CCGCTAAACGGGGGGAGCAAATAAAACCCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGaaa                                                                                                          <  2:772651/143‑1 (MQ=255)                                    gCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAAc                                                                                                        >  1:761366/1‑150 (MQ=255)                                       acccccAGCCCCGCCACCCAGCAAGAGATTTGGGCAGTGGTGCCCCCGGCAAAAATCGTTGTTTCCAAG‑ATTATTC‑CCGTTGAGCGGGGGTAGACAATTAACACCCCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGAc                                                                                                    <  1:338397/149‑1 (MQ=255)                                       aGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGAc                                                                                                    >  1:501784/1‑151 (MQ=255)                                          cccAGCCCCGTCACCCAGCCAGAGTTTTGTGCGGGGGTGGCTCGGGCAAAAACCGCGGCTTGCAAG‑ATTATTG‑CCGCTGAACGGGCGTACCAAATAAATCCCCCCAAAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCa                                                                                                 <  1:754554/151‑1 (MQ=255)                                                 ccGTCATCCAGCCAGATTTTTGTGCGGTGGTGCCCCGGGCGACAATCGCTGCTTGCCAG‑ATTTTTG‑CCCCTGACCGGGCGTAGCCAATTAATCCCGCCAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCAc                                                                                          <  1:365154/151‑1 (MQ=255)                                                 ccGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCAc                                                                                          >  1:730907/1‑151 (MQ=255)                                                 ccGTCACCCAGCAAGATTTTGGTGCGGTGGTGGCTCCGGCAACAACCGCTGTTTCCAAA‑ATTTTCC‑CCGCTGAACGGGCGTAGCAAATTAACCCCCCCAAAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAg                                                                                              <  1:305509/147‑1 (MQ=255)                                                 ccGTCACCCACCCAGAGATTTGGGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCAATTTAATCCCGCCAAAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGt                                                                                             <  1:485789/148‑1 (MQ=255)                                                  cGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCAcc                                                                                         >  1:93377/1‑151 (MQ=255)                                                     cATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCg                                                                                      >  1:64373/1‑151 (MQ=255)                                                        ccagccagAGATTTGGGAGGGGGTGGCCCGGGCGAAAACCGCTGCTGGCAAA‑ATTATGG‑CCGCTGAACGGGGGTAGCAAATAAAACCCGCAAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCt                                                                                        <  2:69989/146‑1 (MQ=255)                                                                   tttGTGCGGTGGGGGCCCCGGCAACAACCGCTGCTTGCCAG‑TTTTTTC‑CCGCTAAACGGGCGTACCAAATAAATCCCGCCAAAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGc                                                                           <  1:325478/148‑1 (MQ=255)                                                                   tttGGGCGGTGGGGGCCCCGGCAAAAACCGCTGC‑TGCCAA‑ATTTTTGCCCGCTGACCGGGGGTACCAAATTAATCCCCCCAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTta                                                                               <  1:756272/144‑1 (MQ=255)                                                                    ttGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTAc                                                                       >  2:630148/1‑151 (MQ=255)                                                                        ggggtggtgGCCCGGGCGACAACCGCTGCTTCCCAG‑ATTATTG‑CCGCTGAACTGGCGTGGCAAATAAATCCCCCCAAAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAg                                                                     <  1:96133/146‑1 (MQ=255)                                                                          aGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCAc                                                                 >  1:125577/1‑151 (MQ=255)                                                                           gtggtgGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCAcc                                                                >  2:369803/1‑151 (MQ=255)                                                                           gtggggGCCCGGGCAAAATTCGCTGCTGGCCAG‑ATTATGG‑CCGCTGACGGGGGGTAGCAAATAAATCCCGCAAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCAc                                                                 <  2:635103/150‑1 (MQ=255)                                                                           ggggtggCTCCGGCGAAAATCACT‑CTTGGCAGTTTTAGTG‑CGGCTGATCGGGCGTAGCAAATAAACCCCGCCAGAAACCCCGCCAGTAGCGTGGGTGGGGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTAc                                                                       <  2:678915/142‑1 (MQ=255)                                                                           ggggtggCCCCGGCGACAATCGCTGCTTGCCAA‑ATTTTTG‑CCGGTAACCGGGCGTAGCAAATTAACCCCGCCAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCAcc                                                                <  1:359496/149‑1 (MQ=255)                                                                               gggCCCCGGCGACAATCCCTTTTTGCCAG‑TTTTTGC‑CCGTTGACCTGGCGTAGCAAATAATCCCCCCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAg                                                            <  1:292350/150‑1 (MQ=255)                                                                                    ccgggaacagccGCTGCTTGCCAA‑ATTTTTG‑CCGCAGACCGGGGTTAGCAAATAAACCCCGCAAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCAtt                                                        <  2:293243/139‑1 (MQ=255)                                                                                    ccGGCGCCAATCGCTGCTTGCCAG‑ATTATTC‑CGCCAGAACTGGCGTAGCCAATTAATCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCAtt                                                        <  1:482454/150‑1 (MQ=255)                                                                                     cGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTg                                                      >  2:357053/1‑151 (MQ=255)                                                                                      ggCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGt                                                     >  1:384250/1‑151 (MQ=255)                                                                                      ggCGAAAATCGCTCCTTGCCAG‑ATTATGC‑CTTCTAAAGTGGCGCAACCATATAATCCCGCAAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGt                                                     <  1:478050/151‑1 (MQ=255)                                                                                          aCATTCGCTGCTGGCCAG‑TTTAGTG‑CCGCTGAACTGGCGTACCAAATTAATCCCGCCAGAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGt                                                 <  1:288926/151‑1 (MQ=255)                                                                                          aCAAGCGTTGCTTCCCAG‑ATTATTC‑CCGCGGAACGGGCGTACCCAATTAATCCCCCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCa                                                          <  1:652125/142‑1 (MQ=255)                                                                                                gctgctTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAAc                                           >  2:712433/1‑151 (MQ=255)                                                                                                   gctTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGc                                         >  1:20424/1‑150 (MQ=255)                                                                                                               tattG‑CCGTTAAACTGGCTTAGCAAATAAAACCCGCAAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATaa                              <  1:739338/150‑1 (MQ=255)                                                                                                                attG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAAc                            >  1:457865/1‑151 (MQ=255)                                                                                                                     ccggggaccgggggTAGCAAATAAAGCCCGCAAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTcc                        <  1:376670/138‑1 (MQ=255)                                                                                                                           accgggcgtcccaaaTTAATCCCGCAAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGtttt                   <  2:251822/137‑1 (MQ=255)                                                                                                                            aCTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGc                 >  2:28859/1‑151 (MQ=255)                                                                                                                                  gTAGCAAATTAACCCCGCCAAAACCCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGCCggag            <  1:209853/150‑1 (MQ=255)                                                                                                                                         aTTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGCCGGAGGAGTCGc     >  2:211951/1‑150 (MQ=255)                                                                                                                                           tAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGCCGGAGGAGTCGCATg  >  1:753971/1‑151 (MQ=255)                                                                                                                                               |                                                                                                                                                   ACCATAATGTCAGAGTCAGCGTACTGACGCCCATTGCCAGCCCCAGCGCCGTCATCCAGCCAGAGATTTGTGCAGTGGTGGCTCCGGCGACAATCGCTGCTTGCCAG‑ATTATTG‑CCGCTGAACTGGCGTAGCCAATTAATACCGCCAGAAACCCCGCCAGTAGCGTGGGTGGAGGAATAGAAAACAGACGCATAGTCACCTCGTGCGTTATAGCGTACAGGCACCGTAGCATTTGTCCGTTATAACGCACAAGTGATAAACTTCCGTTTTGCCGGAGGAGTCGCATG  >  NC_000913/1505888‑1506174

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: ‑