Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	753,125	0	T	A	44.0%	65.4 / 23.6	50	intergenic (‑330/+60)	ybgD/gltA	putative fimbrial‑like adhesin protein/citrate synthase
Reads supporting (aligned to +/- strand):  ref base T (23/5);  new base A (0/22);  total (23/27)
Fisher's exact test for biased strand distribution p-value = 9.87e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTG  >  NC_000913/752976‑753271                                                                                                                                                      |                                                                                                                                                   cATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCatat                                                                                                                                                    >  1:58745/1‑150 (MQ=255) cATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCatat                                                                                                                                                    >  1:397456/1‑150 (MQ=255) cATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCAtata                                                                                                                                                   <  1:236987/151‑1 (MQ=255)  aTTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCAtata                                                                                                                                                   >  1:383170/1‑150 (MQ=255)  aTTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATaa                                                                                                                                                  <  1:230974/151‑1 (MQ=255)  aTTTTCATAGGGTTATAAATGCGAATACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCAtata                                                                                                                                                   <  1:55075/150‑1 (MQ=255)     ttCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATaaaa                                                                                                                                                >  2:74612/1‑150 (MQ=255)          aGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAc                                                                                                                                          >  1:813514/1‑151 (MQ=255)            ggTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAccc                                                                                                                                        <  2:809443/151‑1 (MQ=255)              ttATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGc                                                                                                                                      >  1:747391/1‑151 (MQ=255)                ataAATGCGACTACCATGAAGCTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGcc                                                                                                                                     >  2:66968/1‑150 (MQ=255)                  aaaTGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCat                                                                                                                                   >  1:411507/1‑150 (MQ=255)                  aaaTGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCat                                                                                                                                   >  2:70625/1‑150 (MQ=255)                   aaTGCGACTACCATGAATTTTTTAATTGAAAGTATTGGTTTGCTGATAATTTGAGCTTTTCTTTTTTTTTTAAATATCTATATAGGTCTGTAAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCACCCCGCCatat                                                                                                                                 <  1:237999/151‑1 (MQ=255)                        gACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGaa                                                                                                                              >  2:455551/1‑149 (MQ=255)                              cATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCggg                                                                                                                       >  1:159532/1‑150 (MQ=255)                                tGAAGTTTTTATTTAAAATTTTTGGTTTGTTTATAATTTGGGTTTTTTTTTTTTTTTTAAATATTTATATAGGTCTTTTATTGGTTTTTATTTTTAAATTTTTTGGTTTTTAGGCAAAAAAAAATCAACCCGCCATATGAAcggcgg                                                                                                                        <  1:134611/147‑1 (MQ=255)                                             tGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTTCaa                                                                                                        >  2:557159/1‑150 (MQ=255)                                                   ttttGGGTTGTTAATATTTTGAGTTTTTTTTTTTTTTTTAAATATTTATATAGTTTTTTTAAGGATTTTTATTTTTAAAATTTTTTGTTTTAAGAAATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                                  <  1:737554/148‑1 (MQ=255)                                                        ggTTGCTGATAATTTGAGCTGTTCTTTTCTTTTTAAATATCTATATAGGTCTTTTAATGGATTTTATTTTTACATTTTTTTGTGTTTAGGCATAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCaa                                                                                            <  2:139036/151‑1 (MQ=255)                                                            gCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCa                                                                                         >  2:684737/1‑150 (MQ=255)                                                                atatTTTGAGCTGTTTTTTTTTTTTTAAATATTTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTTTTTAGGCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTaa                                                                                     <  2:704731/150‑1 (MQ=255)                                                                  attttGAGTTTTTTTTTTTTTTTAAAATATTTATATAGGTTTTTTAATGATTTTTTTTTTTAAATTTTTTTTTTTTTAGACATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAGCg                                                                                   <  1:226716/148‑1 (MQ=255)                                                                    tttGAGCTTTTCTTTTTTTTTAAAATATTTATATAGTTTTGTAAATGGATTTTATTTTTACAATTTTTTGTGTTTGGGTAAAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGc                                                                                  <  2:471231/149‑1 (MQ=255)                                                                      tGATCTTTTCTATTCTTTTAAAATATCTATATAGGTCTGTAAATGGATTTTTTTTTTACAATTTTTTGTGTTTAGTCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTg                                                                               <  2:238842/150‑1 (MQ=255)                                                                         gtttttatATTTTTTTAAAATATATATTTAGTTCTTTTAATAGATTTTATTTTTAAAATTTTTTGTTTTTAGCAATAAAAAAAAAAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGatat                                                                           <  2:159560/144‑1 (MQ=255)                                                                          cTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGata                                                                            >  2:890637/1‑149 (MQ=255)                                                                           ttttCTATTTTTTTTAAATATCAATATAGGTTTGTTAATGTTTTTTATTTTTACAATTTTTTGTTTTTAGGCAAAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATc                                                                          <  2:446078/148‑1 (MQ=255)                                                                              tCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGAAATCAACCATTAACGCTTGATATCGCtt                                                                      >  1:134587/1‑151 (MQ=255)                                                                                  ttttttttAAATATCTATATAGTTTTTTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGCCATATAAAAAACAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCtttt                                                                    <  2:312153/146‑1 (MQ=255)                                                                                  ttCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCtttt                                                                    >  2:824988/1‑149 (MQ=255)                                                                                   tCTTTTAAAATATCTATATAGGTCTGTTAAGGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTaa                                                                  <  2:817238/150‑1 (MQ=255)                                                                                     tttttAAATATTTATATAGTTTTTTTAATGGTTTTTATTTTTACAATTTTTTGTTTTAAGGAATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTaaa                                                                 <  1:815919/149‑1 (MQ=255)                                                                                     tttttAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAACAATCAACCATTAACGCTTGATATTGCTTTTaaa                                                                 >  1:476045/1‑149 (MQ=255)                                                                                     ttttaAAATATCTATATAGGTTTGTAAATGGTTTTTTTTTTTAAATTTTTTTTTTTTTAGGCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAg                                                                <  2:164070/150‑1 (MQ=255)                                                                                      tttaAAATATTTATATAGGTCTGTAAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGAATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTaaa                                                                 <  2:781588/148‑1 (MQ=255)                                                                                          aattatCTATATAGGTCTTTTAATGGATTTTATTTTTACATTTTTTTGTGTTTAGCAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGATTGATATCGCTTTTAAAGTcg                                                             <  2:537685/145‑1 (MQ=255)                                                                                          aaaTATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTACAACTTAGTCATCAACCATTTACGCCTGATATCGCTTTTTAAAAcgcg                                                           >  2:693761/1‑150 (MQ=255)                                                                                             tatTTATATAGGTTTTTTAATGATTTTTTTTTTTACAATTTTTTGTGTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTAATATCGCTTTTAAAGTCGCGttt                                                        <  2:750448/150‑1 (MQ=255)                                                                                              atCTATATGGGTTTGTTAATGTATTTTTTTTTTACAATTTTTTGTTTTTAGAAAAAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGtttt                                                       <  1:684692/150‑1 (MQ=255)                                                                                                 tatataGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGTTTAAAATATTTTCAACTTAGCAATCAACCATTTACGCTTGATATTGCTTTTTAAGTTGCGtttttt                                                     >  1:793753/1‑148 (MQ=255)                                                                                                       ggTCTTTTAATGGTTTTTTTTTTTACATTTTTTTGTTTTTAGGAATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATcc                                               <  2:383198/149‑1 (MQ=255)                                                                                                          cTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCCTTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTg                                             >  2:623034/1‑148 (MQ=255)                                                                                                             ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTTGCGTTTTTCCTATCCTGTATAc                                        >  2:183348/1‑150 (MQ=255)                                                                                                               aaTGTATTTTTTTTTTAAATTTTTTTGTTTTTAGACATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGtata                                         <  1:587132/147‑1 (MQ=255)                                                                                                                         attttTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTTATATCCTGTATACAGCTGACGCGGa                            >  2:260151/1‑150 (MQ=255)                                                                                                                          tttttgataTTTTTTGTGTTTTGCAATATAAAAAACAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGAc                           <  1:88697/142‑1 (MQ=255)                                                                                                                            tttACAATTTTTTGTGTTTAGGCATATAAAAATTAACCCGCCATATGAACGGCGGCGTTAAATCTTTTCAATCTAGCAATCCACCCATCACGCTTTATATCGCCTTTTAATTCCCGTTTTTCATATCCTGTATACAGCTGACGCgg                             >  1:76796/1‑146 (MQ=255)                                                                                                                                   ttttttGTGTTTAGGAATAAAAAAATAAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCt                  <  2:787054/150‑1 (MQ=255)                                                                                                                                     tttgttttttAGGCATAAAAAAACAACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTc                <  1:870204/143‑1 (MQ=255)                                                                                                                                      tttGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTTCAACTTAGCAATCAAACATTAACGCTTGATATCGCTTTTAAAATCGCGTTTTTCATATCCTGTATACAGCTAACGCGGACGGGCAATCTTc                >  2:202112/1‑149 (MQ=255)                                                                                                                                        tgtgTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTTATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATa             >  1:169332/1‑150 (MQ=255)                                                                                                                                          tttttAGCAATAAAAAAACCACACCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATAcc           <  1:145844/148‑1 (MQ=255)                                                                                                                                            ttaaGGAATAAAAAAATAACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCg          <  1:857744/146‑1 (MQ=255)                                                                                                                                                ggCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTTGCAATCAACCAATAACGCTTGATATCGCTTTTAAAGACGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACtg    >  2:420833/1‑151 (MQ=255)                                                                                                                                                   ataaAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACtgtg  <  1:526913/150‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                   CATTTTCATAGGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTG  >  NC_000913/752976‑753271

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑