Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	753,125	0	T	A	47.1%	53.3 / 26.8	51	intergenic (‑330/+60)	ybgD/gltA	putative fimbrial‑like adhesin protein/citrate synthase
Reads supporting (aligned to +/- strand):  ref base T (22/5);  new base A (0/24);  total (22/29)
Fisher's exact test for biased strand distribution p-value = 8.69e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCAT  >  NC_000913/752977‑753274                                                                                                                                                     |                                                                                                                                                      aTTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCAtata                                                                                                                                                      <  2:125006/150‑1 (MQ=255)  ttttCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATaa                                                                                                                                                     >  2:1141583/1‑150 (MQ=255)                                 aaGTTTTTAATTAAAAGTATTGGGTGGCTGATAATTTGAGCTTTTTTATTTTTTTTAAATATCTATATGGGTTTGTTAATGGTTTTTATTTTTAAAATTTTTTGTGTTTAGCAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTaa                                                                                                                      <  1:915606/150‑1 (MQ=255)                                   gTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTacaa                                                                                                                    >  2:924465/1‑150 (MQ=255)                                       ttATTTTAAAGTATGGGGTTCAGTATATTTTGTGTTTTTTTATTTTTTAAAAATTTCTATATTGTTTTTTAAATGCTTTTTATTTTTACATTTTTTTGTTTTTAGGAATAAAAAAACCCACCCGCCATATGAACGGCGGGTTAAAATAtt                                                                                                                <  2:44048/150‑1 (MQ=255)                                            tGAAAGTATTGGTTTGCTGATAATTTGAGCTTTTTTATTTTTTTTAAATATCTATATAGGTTTTTTAATGGATTTTATTTTTACAATTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACa                                                                                                            <  1:535948/149‑1 (MQ=255)                                             gataGTATTGGGCTGCTGGTAATTTGAGCTGTTCTATTGTTTTTAAATATCTATATAGGTCTGTTAGTGGGTTTTATTTTTACAATTTTTTGTGTTTAGGCATATAGAAATCAACCGGCCATATGAACGGCGGTGTGAAataat                                                                                                                >  2:533710/4‑142 (MQ=255)                                               aaGTTTTGGTTTGCTAATATTTTGATTTTTTTTTTTTTTTTTAAATTTTTATATAGGTCTTTTAATGGATTTTTTTTTTACATTTTTTTTTGTTTAGGCATATAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTa                                                                                                       <  2:1176741/151‑1 (MQ=255)                                                 gTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAg                                                                                                      >  1:649845/1‑150 (MQ=255)                                                  tATTGGGTTGCTGATAATTTGAGCTGTTCTATTTTTTTTAAATATCTATATAGGTCTGTTAATGGTTTTTATTTTTAAAATTTTTTGTTTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                                     <  1:656380/150‑1 (MQ=255)                                                   aTTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCa                                                                                                    >  1:753520/1‑150 (MQ=255)                                                    ttGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCaa                                                                                                   >  1:865060/1‑150 (MQ=255)                                                    ttGGGTTGCTGAAATTTTGTGCTTTTTTTTTTTTTTTAAATTTCTATATAGTTCTTTTAATGGATTTTTTTTTTACAATTTTTTGTTTTTAGGCATATAAAAAGCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCaa                                                                                                   <  2:489442/150‑1 (MQ=255)                                                      gggTTGCTGATAATTTGAGCTGTTTTATTCTTTTTAAATATCTATATAGGTCTGTTAATGTTTTTTATTTTTACAATTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATc                                                                                                 <  1:884974/150‑1 (MQ=255)                                                          tGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAAATTAACAATCa                                                                                                >  2:942304/1‑147 (MQ=255)                                                            cTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCAtt                                                                                          >  1:796926/1‑151 (MQ=255)                                                             tGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCAtt                                                                                          >  1:870113/1‑150 (MQ=255)                                                                tattttGAGCTTTTTTATTTTTTTTAAATATTTATATAGGTTTTTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTaa                                                                                        <  2:917800/146‑1 (MQ=255)                                                                    ttGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGGTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTg                                                                                  >  1:234787/1‑151 (MQ=255)                                                                     tGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTAAAACTTAACAATCAACCATTAAAGCTTg                                                                                  >  2:1167807/1‑150 (MQ=255)                                                                          ttttCTTTTTTTTTTAAATATTTATATAGGTTTTTAAATGGATTTTATTTTTACATTTTTTTGTTTTAAGGAATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGatat                                                                              <  1:713154/147‑1 (MQ=255)                                                                          ttttCTATTTTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTTTTTTTACAATTTTTTGTGTTTAGGCAAATAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGa                                                                                 <  1:556482/144‑1 (MQ=255)                                                                           gTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTACAACTTTACAAACAACCATTAAAGCTTGGTATCGc                                                                           >  2:867771/1‑151 (MQ=255)                                                                            ttttttttttttaAAATATCTATATAGGTCTTTTAATGGTTTTTATTTTTAAAATTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATc                                                                             <  2:91154/140‑1 (MQ=255)                                                                              cTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCttt                                                                        >  1:1082677/1‑151 (MQ=255)                                                                                 ttttttttAAATTTTTATATAGGTCTTTTAATGGATTTTTTTTTTACATTTTTTTGTGTTTAGGTATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCtttt                                                                       <  2:551431/146‑1 (MQ=255)                                                                                    tttttAAATATTTATATAGTTCTTTTAATGTTTTTTATTTTTAAATTTTTTTGTTTTTAGGCATAAAAAAATAAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTaaa                                                                    <  2:409703/149‑1 (MQ=255)                                                                                      tttAAATATTTATATAGGTCTTTTATTGTATTTTTTTTTTACAATTTTTTGTTTTTAGACATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTc                                                                 <  2:471250/150‑1 (MQ=255)                                                                                        tAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGGTTAAATATTTACAAATTAGCAATCAACCCTTAAAGCAAGGTATCGATTTTAAAGTtgcg                                                              >  2:264099/1‑151 (MQ=255)                                                                                         aaaTATTTATATGGGTTTGTTAATGGTTTTTATTTTTACATTTTTTTGTGTTTAGATATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTcgc                                                               <  2:776906/149‑1 (MQ=255)                                                                                         aaaTATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAATcgcg                                                              >  2:773871/1‑150 (MQ=255)                                                                                            tatTTATATAGGTCTTTTAATGGTTTTTATTTTTAAAATTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGttt                                                           <  1:844500/150‑1 (MQ=255)                                                                                                tatatggcttttttAATGTTTTTTATTTTTACAATTTTTTGTTTTTGGACAAATAAAAAACAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGtttt                                                          <  2:513631/135‑1 (MQ=255)                                                                                                 atataGTTTTGTTAATGATTTTTTTTTTTAAAATTTTTTGTTTTTAGGAATAAAAAAAACAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                                      <  2:653668/150‑1 (MQ=255)                                                                                                    taGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATcc                                                  >  1:754211/1‑151 (MQ=255)                                                                                                        tctttaaaTGGTTTTTATTTTTAAAATTTTTTGTTTTTAGGAATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGt                                               <  1:890895/144‑1 (MQ=255)                                                                                                          ttttAATGGATTTTTTTTTTACATTTTTTTGTTTTTAGGAATAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGtat                                             <  1:748392/148‑1 (MQ=255)                                                                                                            ttAATGTTTTTTTTTTTTACATTTTTTTGTGTTTGGGAATAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATAc                                           <  1:663335/150‑1 (MQ=255)                                                                                                            ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTACAACTTAACAATCAACCATTAAAGCTTGATTTCGCTTTTAAAATCGCGTTTTTCATATACTGt                                               >  2:937330/1‑146 (MQ=255)                                                                                                              atttgATTTTATTTTTACAATTTTTTGTTTTTAGACATAAAAAAATCAACCCGCCATATGAACGGCGGTTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCa                                                       <  2:785891/132‑1 (MQ=255)                                                                                                              aaTGTATTTTATTTTTACATTTTTTTGTTTTTAGGAATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAg                                         <  2:753507/150‑1 (MQ=255)                                                                                                                 ggATTTTATTTTTAAATTTTTTTGTGTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGc                                        <  1:130411/148‑1 (MQ=255)                                                                                                                   tttttttttttAAATTTTTTTTTTTTTAGTTAAAAAAAACTCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCt                                       <  2:1064157/146‑1 (MQ=255)                                                                                                                    ttttattttTAAATTTTTTTGTTTTTAGCCATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCt                                                 <  2:85545/136‑1 (MQ=255)                                                                                                                      ttattttTACATTTTTTTGTTTTTAGGAATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGAcgcg                                 <  2:48245/150‑1 (MQ=255)                                                                                                                       tattttTACAATTTTTTGTGTTTAGGCCTATAAAAATCAACCCGCCATATGAACGGCGGGATTAAAAATTTACAAAATAGCAATCAAACATAAAAGCCTGATATCGCATATCAAGACGCGTTTTTCCTATTCTGTATACACCTGACGCgg                                >  2:865307/1‑150 (MQ=255)                                                                                                                              aCATTTTTTTGTTTTTAAAAAAAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTGGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACggg                           <  2:1246286/148‑1 (MQ=255)                                                                                                                                aaTTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCaa                        <  1:774299/149‑1 (MQ=255)                                                                                                                                   tttttGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTTGCGTTTTTCATATCCTGTATACAGCTGACGCGGGCGGGCAATCtt                    >  2:758672/1‑150 (MQ=255)                                                                                                                                   tttttGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTTATATCCTGGATAAAGCTGACGCGGACGGGCAATCtt                    >  2:479998/1‑150 (MQ=255)                                                                                                                                     tttGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTAAAAATTAACAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTc                   >  2:1036933/1‑149 (MQ=255)                                                                                                                                             tAGGCATATAAAAATCAACCCGCGATATGAACGGCGGGTGTAAAAATTTACAACTTAACAAACAACCATTTACGCTTGGTATCGCTTTTAAAATAGTGTTTTTTATATCTCTTATACAGATGCTGCGGAACGTCAATCTTCATACCGCCAc         >  2:61413/1‑151 (MQ=255)                                                                                                                                                  atatAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACtgtg     >  1:971857/1‑150 (MQ=255)                                                                                                                                                  ataaAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACtgt      <  1:616894/149‑1 (MQ=255)                                                                                                                                                    ataAAAATCAACCCGCCATATGACCGGCGGGTTAAAATAATTTCAACTTAACAATCAACCCTTAAAGATTGATATCGCTTTTAAAATCGCGTTTTTTATTTTCTATATACAACTTAAGACGACGAGAAATCCTCATAACGTCACtgttgat  >  2:44252/1‑147 (MQ=255)                                                                                                                                                     |                                                                                                                                                      ATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCAT  >  NC_000913/752977‑753274

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑