Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,825,056	0	G	A	45.1%	46.2 / 27.1	51	intergenic (‑119/+84)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
Reads supporting (aligned to +/- strand):  ref base G (20/8);  new base A (0/23);  total (20/31)
Fisher's exact test for biased strand distribution p-value = 4.33e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAATT  >  NC_000913/1824910‑1825205                                                                                                                                                    |                                                                                                                                                      aCATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGagaaaa                                                                                                                                                   <  2:370235/151‑1 (MQ=255)   aTTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTgagaagagaa                                                                                                                                                     >  2:944354/1‑147 (MQ=255)        aCGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAAc                                                                                                                                             <  2:579460/150‑1 (MQ=255)        aCGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAAc                                                                                                                                             <  2:885159/150‑1 (MQ=255)         cGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAAccg                                                                                                                                           >  1:755990/1‑151 (MQ=255)                cAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATcc                                                                                                                                    >  2:227498/1‑151 (MQ=255)                 aaaGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCt                                                                                                                                   >  2:91581/1‑151 (MQ=255)                      aTTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTcc                                                                                                                               >  1:958221/1‑150 (MQ=255)                        tCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCAcc                                                                                                                            >  2:127600/1‑151 (MQ=255)                           aatctcccccacGGCCATTTCTTTTCATTTTTATCTTTCAGTTACCCTGGT‑TTGTTTATCGCCAACGTTGTTGATTATCATAAGTGAAAACCAGTTTTTTTTCACACCTGTTTAAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCa                                                                                                                         <  2:329575/140‑1 (MQ=255)                           aTACCCGCTCCCGGCCCTTTTTTTTCTTTTTTATCTTTCAGGTACCCGTGG‑TTGTTTATCGGCAACTGGGGTTATTTACTTTAGTGGTGATCAGTTTTTTTTTACAACTTTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCg                                                                                                                           <  1:519378/149‑1 (MQ=255)                             aCTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGGGG‑ATGGTTATCGGCAACCCGGGTGATTTACGTTAGTGCTGATCAGGCTTTTTTTACAACTGTTTGAGAAGCGAAAAGACAACCGCCGATCCTGTCCACCGCAtt                                                                                                                       >  2:669472/1‑151 (MQ=255)                                 gCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTg                                                                                                                   >  1:452348/1‑151 (MQ=255)                                 gCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTg                                                                                                                   >  2:954916/1‑151 (MQ=255)                                  cTCCCCGCCCTTTGTTTTCTTTTTTATCGTTCTGCTAATCGTGG‑ATAATTATGAGCATCTGGGGTTATTTATTTTAGTGTTACTCGTTTTTTTTTTAAATCTTTTGAAAAATAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACt                                                                                                                    <  1:513913/149‑1 (MQ=255)                                    cccGGCCCTTTTTTTTCATTTTTATCGTTCAGGTAACCGTGG‑TTGGTTACCGGCACCTGGGGTGTTTTACGTTAGTGGTGATCGGTTTTTTTTTACACCTGTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCa                                                                                                                 <  1:200547/150‑1 (MQ=255)                                      cGGCCCGATCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑CTGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGGGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAgg                                                                                                              >  2:597331/1‑151 (MQ=255)                                       ggcctttttttttCATTTTTATCGTTCAGGTAACCGTGG‑TTGTTTTTCGCCACCTCGGGTGATTTACTTTAGTGGTGATCAGGCTTTTTTTACACTTTTTTAAAAAGAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGc                                                                                                                  <  2:679642/137‑1 (MQ=255)                                         cctgTTCTTTTCTTTGTTATCTTTAAGGTAACCGTGG‑ATGGTTTTCGGCAACTGGGGTGATTTACTTTAGTGGTGATCAGGCTTTTTTTACAGTTTTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTa                                                                                                            <  2:290384/147‑1 (MQ=255)                                          ccGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAg                                                                                                           >  2:505717/1‑150 (MQ=255)                                                tttactttGTTATCGTTGAGGTAAGCGTGG‑ATGTTTTTGGGCAACTCGGGTTTTTTCCGTTGGTGTTGATCGGTTTTTTTTTACATCTGTTTGAGAAGAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGAc                                                                                                      <  2:717172/143‑1 (MQ=255)                                                      tttttACCGTCCAGGTACCCGTTG‑ATGGTTCTGGCCAACGGGGGTGATTTACGTTAGTGGTGCTCAGTTTTTTTTTACACTTTTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcg                                                                                               <  2:39381/147‑1 (MQ=255)                                                      ttGTTATCTTTCGGGT‑ACCGTGGTGTGTTTATCGGCACCTGGGTTAATTTAGGTTGTTGGTATGCAGGTTTTTTTAACAATTTTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGAcc                                                                                                <  2:50744/149‑1 (MQ=255)                                                         ttaccgtcaaGGTAACGGTGG‑TGGGTAATCGGAACCGGGGGGTATTTACTTTATTGGTGATCAGGTTTTTTTTACAACTGTTTGGAAAGAGAAAGGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcggc                                                                                             <  2:8644/140‑1 (MQ=255)                                                         ttATCTTTCAGGTACCCGGGG‑ATGTTTATCGGCAACGGGGGTAATTTGCGTTAGTGGTGACCGGGCTTTTTTTACAACTGTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcggcg                                                                                            <  1:927561/150‑1 (MQ=255)                                                           aTCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTc                                                                                         >  2:617431/1‑151 (MQ=255)                                                                       acgtgcggtttgtgaTCGGCAACCGGTGTGATTCCCGTTAGTGGTTCTCCGTTTTTTTTCACAACTGTTCGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtttttt                                                                              <  2:470354/137‑1 (MQ=255)                                                                       aCCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtttttt                                                                              >  2:121352/1‑150 (MQ=255)                                                                            gg‑ATGTTTATCGGCAACTCGGGTGATTTACGTTGGTGGTGATCAGGTTTTTTTTACAACTTTTGGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTg                                                                         <  2:962974/150‑1 (MQ=255)                                                                            gg‑ATGTTTACCGCCAACTGGGGGAATTTCCTTTAGTGGTGATCAGGTTTTTTTTACAACTGTTGGAGAAGAGAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTgg                                                                            <  2:674217/147‑1 (MQ=255)                                                                               aTGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGaa                                                                       >  1:16465/1‑150 (MQ=255)                                                                                 gtttACCGGAACCTGGGGTGATTTAGGTTAGGGGTGATCAGGTTTTTTTAACACCTTTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGaaa                                                                      <  1:43588/147‑1 (MQ=255)                                                                                   ttATCGGCACCTGGGGTTTTTTACGTTAGTGGTGATCGGGTTTTTTTTACAACTGTTGGAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGaaa                                                                      <  1:816873/147‑1 (MQ=255)                                                                                        gccAACTGGGGTGATTTATGTTAGTGGTGATCAGGTTTTTTTTACACCTTTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGattat                                                                <  1:456539/146‑1 (MQ=255)                                                                                          aatccggggTGTTTTATGTAAGGGGTGATCGGTTTTTTTTTACACTTTTTTAAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTcag                                                            <  1:753861/144‑1 (MQ=255)                                                                                           aaCTGGGGTGATTTAGTTTAGTGGTAATCGGGTTTTTTTTCCAACTTTTGGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTcagca                                                          <  1:522213/151‑1 (MQ=255)                                                                                                gggTGTTTTACGTTAGTGGTGAGCAGGTTTTTTTTACAGCTTTTTAAGAAAAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCAGAAAGATTATTCAGCAGtt                                                       <  1:907543/149‑1 (MQ=255)                                                                                                     aTTTACGTTAGTGGTGAGCGGGTTTTTTTTACAGCTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGc                                                 <  2:104613/150‑1 (MQ=255)                                                                                                      tttACGTGGGTGGTGATCAGGTTTTTTTTACAACTTTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAg                                                   <  2:997519/147‑1 (MQ=255)                                                                                                           gTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTa                                           >  1:720258/1‑150 (MQ=255)                                                                                                                 ggtgTTCCGGTTTTTTTTTCAACTGTTGGAGAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGGGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCtt                                       <  1:535497/148‑1 (MQ=255)                                                                                                                 ggtgATCAGGTTTTTTTTACAACTGTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTg                                    <  1:101165/151‑1 (MQ=255)                                                                                                                 ggtgATAAGTTTTTTTTTACAACTGTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCttt                                      <  1:926375/149‑1 (MQ=255)                                                                                                                  gtgATCAGGCTTTTTTTACAACTGTTTGAGAATAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCtttt                                     >  1:764363/1‑149 (MQ=255)                                                                                                                     aTCAGGCTTTTTTTACAACTGTTTGAGACGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTTAGTTTTTTTGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGc                                   >  2:332395/1‑148 (MQ=255)                                                                                                                      tCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGGTGGAGGCATTTTACCTTTTGcc                                  >  2:633573/1‑148 (MQ=255)                                                                                                                         gtttttttttACACCTTTGTAAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTgg                             <  2:545678/147‑1 (MQ=255)                                                                                                                          gCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCCGGCATTTTACCTTTTGCCGCTGGAc                           >  1:150776/1‑151 (MQ=255)                                                                                                                                ttaaaaaCTTTTAGAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTGTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCt                      <  2:607652/145‑1 (MQ=255)                                                                                                                                 ttACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGt                    >  1:704603/1‑151 (MQ=255)                                                                                                                                  tACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGATTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGt                    >  2:258163/1‑150 (MQ=255)                                                                                                                                        tGTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACg              <  1:389782/150‑1 (MQ=255)                                                                                                                                            tGAAAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACg              <  2:385393/146‑1 (MQ=255)                                                                                                                                                   agaaaagaaaACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTTAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTTCCTTTTTCCGCTGGACGTTCTGTCAGACGCTTCTCAAAAtt  >  2:812762/1‑151 (MQ=255)                                                                                                                                                    |                                                                                                                                                      ACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGG‑ATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAGGCTTTTTTTACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTACCTTTTGCCGCTGGACGTTCTGTCAGACGCTTCTCAAAATT  >  NC_000913/1824910‑1825205

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑