Read alignment evidence...
  seq id position change freq score reads annotation genes product
*REL6064,520,3730G→T29.6% 11.054intergenic (‑734/‑722)yjhA/fimBN‑acetylnuraminic acid outer membrane channel protein/recombinase involved in phase variation; regulator for fimA; b4312_1
Reads supporting (aligned to +/- strand):  new base (16/0):  ref base (13/25):  total (29/25)

TCTCATCATGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCT  >  REL606/4520338‑4520408
                                   |                                   
tctcATCATGAAATATGTTTCCTGGTTTGTGGCTTg                                     <  1:1386442/36‑1 (MQ=255)
  tcatcaTGAAATATGTTTCCTGGTTTGTGGCTTGTa                                   <  2:3303402/36‑1 (MQ=255)
   catcatGAAATATGTTTCCTGGTTTGTGGCTTGTaa                                  <  1:698575/36‑1 (MQ=255)
    atcatGAAATATGTTTCCTGGTTTGTGGCTTTTatc                                 >  1:2357697/1‑34 (MQ=38)
     tcatGAAATATGTTTCCTGGTTTGTGGCTTTTattt                                >  2:3135021/1‑33 (MQ=37)
     tcatGAAATATGTTTCCTGGTTTGTGGCTTGTAACt                                <  1:72861/36‑1 (MQ=255)
     tcatGAAATATGTTTCCTGGTTTGTGGCTTGTAACt                                >  1:3604989/1‑36 (MQ=255)
     tcatGAAATATGTTTCCGGGTTTGTGGCTTGTAACt                                <  2:3075740/36‑1 (MQ=255)
      catGAAATATGTTTCCGGGTTTGTGGCTTGTAACTg                               <  2:945167/36‑1 (MQ=255)
       atGAAATATGTTTCCTGGTTTGTGGCTTTTTACTgg                              >  1:2055258/1‑36 (MQ=37)
       atGAAATATGTTTCCTGGTTTGTGGCTTGTAACTgg                              <  1:737766/36‑1 (MQ=255)
       atGAAATATGTTTCCTGGTTTGTGGCTTGTAACTgg                              <  2:2197704/36‑1 (MQ=255)
       atGAAATATGTTTCCTGGTTTGTGGCTTGCAACTgg                              >  2:1834483/1‑36 (MQ=255)
        tGAAATGTGTTTCCTGGTTTGTGGCTTGTAACTGGt                             <  2:2925976/36‑1 (MQ=255)
        tGAAATATGTTTCCTGGTTTGTGGCTTTTTACTGGt                             >  2:3574946/1‑36 (MQ=37)
         gAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTc                            <  2:179818/36‑1 (MQ=255)
          aaaTATGTTTCCTGGTTTGTGGCTTGTAACTGGTCa                           <  1:2037450/36‑1 (MQ=255)
           aaTATGTTTCCTGGTTTGTGGCTTGTAACTGGTCAc                          <  2:2077820/36‑1 (MQ=255)
             tatGTTTCCTGGTTTGTGGCTTTTTACTTGTCACtt                        >  2:2860601/1‑36 (MQ=25)
             tatGTTTCCTGGTTTGTGGCTTTTAACTGGCCACtt                        >  2:3002671/1‑36 (MQ=37)
             tatGTTTCCTGGTTTGTGGCTTTTAACAAGTCACtt                        >  1:2984881/1‑36 (MQ=25)
              atGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTc                       <  2:1814357/36‑1 (MQ=255)
               tGTTTCCTGGTTTGTGGCTTTTTACTTGTTACtttt                      >  2:1622835/1‑34 (MQ=16)
               tGTTTCCTGGTTTGTGGCTTTTAACTTGTCACTTCt                      >  2:2018520/1‑36 (MQ=37)
               tGTGTCCGGGTTTGTGGCTTGTAACAGGTCACTTCt                      <  2:1352686/36‑1 (MQ=25)
                gTTTCCTGGTTTGTGGCTTGTAAATTGTTACttttt                     >  1:2880699/1‑33 (MQ=19)
                 tttTCTGGTTTGTGGCTTGTAACTGGTCACTTCTGa                    <  1:3130060/36‑1 (MQ=255)
                 tttCCTGGTTTGTGGCTTTTAACTGGTCCCCTCtta                    >  2:1747394/1‑34 (MQ=21)
                 tttCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGa                    <  1:147602/36‑1 (MQ=255)
                 tttCCGGGTTTGTGGCTTGTAACTGGTCACTTCTGa                    <  2:2289715/36‑1 (MQ=255)
                 tatCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGa                    <  1:1060373/34‑1 (MQ=255)
                   tCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAg                  >  2:1014895/1‑36 (MQ=255)
                      tGGTTTGTGGCTTTTAACTTGTCACTTCTTAAGTCg               >  1:3653166/1‑36 (MQ=37)
                      tGGTTTGTGGCTTTTAACTGGTCACTTCTTTAGTCg               >  2:161992/1‑36 (MQ=25)
                      tGGTTTGTGGCTTTTAACAGGTCACTTCTTAAGTCg               >  2:3741485/1‑36 (MQ=25)
                       ggTTTGTGGCTTTTAACTTGTCACTTCTTAAGTCGa              >  1:218262/1‑36 (MQ=37)
                       ggTTTGTGGCTTTTAAATGGTCACTTCTGAAGTCGa              >  1:2702988/1‑36 (MQ=37)
                       ggTTTGTGGCTTGTAACTGGTCACTTCTGTAGTCGa              >  2:3062481/1‑36 (MQ=255)
                       ggTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGa              <  2:1708864/36‑1 (MQ=255)
                       ggTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGa              >  2:1908325/1‑36 (MQ=255)
                        gTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGAt             <  2:406714/36‑1 (MQ=255)
                        gTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGAt             <  1:3127955/36‑1 (MQ=255)
                        gTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGAt             <  1:3130366/36‑1 (MQ=255)
                         tttGTGGCTTTTAACTGGTCAATTTTTAAGTTGAtt            >  1:2794830/1‑35 (MQ=12)
                          ttGTGGCTTGTAACTGGTCCCTTCTGAAGTCGATCt           >  2:3220815/1‑36 (MQ=255)
                           tgtgGCTTGTAACTGGTCACTTCTGAAGTCGATCTg          <  1:778896/36‑1 (MQ=255)
                            gtgGCTTGTAACTGGTCACTTCTGAAGTCGATCTgg         <  2:2254281/36‑1 (MQ=255)
                             tgGCTTGTAACTGGTCACTTCTGAAGTCGATCTGga        >  2:3567709/1‑36 (MQ=255)
                             tgGCTTGTAACTGGTCACTTCTGAAGTCGATCTGga        >  2:1189494/1‑36 (MQ=255)
                              ggCTTGTTACTGGTCACTTCTGAAGTCGTTCTCgag       >  2:812307/1‑36 (MQ=25)
                              ggCTTGTAACTGGTCACTTCTGAAGTCGATCTGgag       <  2:2051879/36‑1 (MQ=255)
                               gCTTGTAACTGGTCACTTCTGAAGTCGATCTGgaga      <  2:1783513/36‑1 (MQ=255)
                                  tGTAACTGGTCACTTCTGAAGTCGATCTGGGGGGGc   >  1:3413234/1‑36 (MQ=37)
                                  tGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGc   >  1:3266766/1‑36 (MQ=255)
                                  tGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGc   >  1:1362516/1‑36 (MQ=255)
                                   gTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCt  >  1:1098727/1‑36 (MQ=255)
                                   |                                   
TCTCATCATGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCT  >  REL606/4520338‑4520408

Base quality scores:  ATCG  < 3 ≤  ATCG  < 7 ≤  ATCG  < 13 ≤  ATCG  < 27 ≤  ATCG  < 32 ≤  ATCG