Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913_3_pae_pgi 4,234,667 Δ1 bp intergenic (‑1434/‑499) lysC ← / → yjbE lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_pae_pgi4,234,6660A.98.1% 229.4 / ‑2.6 54intergenic (‑1433/‑500)lysC/yjbElysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base . (26/26);  minor base T (1/0);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAGATGCACCCCAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTGAATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCAC  >  NC_000913_3_pae_pgi/4234535‑4234805
                                                                                                                                   |                                                                                                                                           
gagaTGCACCCCAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGACGAGGCGCTTGCAGTG‑ATCATCGTAGGTATGTAg                                                                                                                           >  2:487475/1‑149 (MQ=255)
       aCCCCAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGAt                                                                                                                    >  2:553427/1‑149 (MQ=255)
         cccAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATaa                                                                                                                  <  2:401980/149‑1 (MQ=255)
          ccAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATCTGTAGGCCGGATAAg                                                                                                                 <  1:75996/149‑1 (MQ=255)
          ccAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAg                                                                                                                 >  2:570610/1‑149 (MQ=255)
            aaGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGc                                                                                                               <  2:644773/149‑1 (MQ=255)
                gCGTTTTATCCTTTTTACGAGACGTGTTCACCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTc                                                                                                           <  1:143163/149‑1 (MQ=255)
                    tttATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCACCGTCGATATGTAGGCCGGATAAGGCGTTCAcgc                                                                                                       >  2:519868/1‑149 (MQ=255)
                     ttATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCAcgcc                                                                                                      <  1:498024/149‑1 (MQ=255)
                      tagcgtttttACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGGCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCAcgccg                                                                                                     <  2:191468/144‑1 (MQ=255)
                       aTCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGatat                                                                                                                               >  1:79537/1‑122 (MQ=255)
                       aTCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGatat                                                                                                                               <  2:79537/122‑1 (MQ=255)
                          cTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACGGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATc                                                                                                 >  2:606251/1‑149 (MQ=255)
                           tttttACGAGGTGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGGTGCATTGAAGAGGCGCTTGCA‑TCTGTCATCGGCGATATGTAGGCCGGATAAGGCGTTGACGCCGCATcc                                                                                                >  2:360223/1‑149 (MQ=255)
                                                  ctctGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGAcg                                                                         >  2:246471/1‑149 (MQ=255)
                                                    ctGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGAcgcg                                                                       <  1:82250/149‑1 (MQ=255)
                                                       tAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGAGGCGACGCGGTc                                                                    <  2:213704/149‑1 (MQ=255)
                                                          aaCTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCATGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGCAAACCGATCCCGCATGCGACGCGGTagcg                                                                 >  1:752573/1‑149 (MQ=38)
                                                           ccTGGCAGTGATTAGAGCACTAAATCCCCTGGCCACCCGAAGAATAGATGCATTGAAGAGCCGCTTGCAATG‑TTCCTCGTGGATATGGATGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGt                                                                <  2:87585/148‑1 (MQ=25)
                                                               gCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTa                                                            <  1:606251/149‑1 (MQ=255)
                                                                   agaTTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAg                                                        <  1:780718/149‑1 (MQ=255)
                                                                    gaTTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGCAGCGCGTGCA‑TGGATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAgg                                                       >  1:424044/1‑149 (MQ=37)
                                                                     aTTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGc                                                      <  1:556541/149‑1 (MQ=255)
                                                                     aTTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGc                                                      <  1:246471/149‑1 (MQ=255)
                                                                        agagGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGAt                                                                                      <  1:714621/114‑1 (MQ=255)
                                                                        agagGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGAt                                                                                      >  2:714621/1‑114 (MQ=255)
                                                                         gagGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTAc                                                  <  2:585185/149‑1 (MQ=255)
                                                                          agGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCCGGCCTACa                                                 >  2:385700/1‑149 (MQ=255)
                                                                            gCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAgg                                               >  1:70352/1‑149 (MQ=255)
                                                                             cggaactCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCTTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGt                                              <  1:623260/143‑1 (MQ=255)
                                                                             cGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                                                                              >  1:364921/1‑101 (MQ=255)
                                                                             cGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                                                                              <  2:364921/101‑1 (MQ=255)
                                                                                   tggcggggCCGCCCCGAGAATAGATGCATGGAAGAGGCGCTTGCAGTG‑GTCATCGTCGATATGTAGGCCGGCTATGGCGTTTACGCCGCATCCGGCAACTGTTGCCTGATCAGGTGCGGTCGCCTATTTTCATGCTCTCAGGTCGATga                                        >  2:604347/7‑148 (MQ=255)
                                                                                   gccccGGGCCACCCCGAGAATAGAGGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGc                                        <  2:215123/148‑1 (MQ=255)
                                                                                     cccTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCg                                      >  1:64493/1‑149 (MQ=255)
                                                                                         ggCCATCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTGGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGatat                                  <  1:141617/149‑1 (MQ=255)
                                                                                           ccACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGt                                >  1:13828/1‑149 (MQ=255)
                                                                                            cACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑CTCATCGTCGCTATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCACCCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAAGTCGATGCCGATATGTa                               >  2:608644/1‑149 (MQ=25)
                                                                                               cccGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACAt                            >  1:133067/1‑149 (MQ=255)
                                                                                                ccGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGc                                                                                                                         <  1:314225/55‑1 (MQ=255)
                                                                                                ccGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGc                                                                                                                         >  2:314225/1‑55 (MQ=255)
                                                                                                ccGAGAATAGATGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATc                           <  2:13828/149‑1 (MQ=255)
                                                                                                          aTGCATTGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGCTATGTACCTCGTATTCGGCa                 >  2:156431/1‑149 (MQ=255)
                                                                                                            gCATCGGAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTGACGCCGCATCCGGCAGCCGATGCCTGATGCAACGCCGTCGCGTCTTATCAGGCCTACAGGTAGATGCCGATATGTACATCGCATTCGGCagt               >  2:599222/1‑147 (MQ=21)
                                                                                                               ttGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTaa            <  1:570610/149‑1 (MQ=255)
                                                                                                               ttGAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATAAGGCCTACAGTTCGATGCCGATATGTACATCGTATTCGGCAATTaa            >  1:734081/1‑149 (MQ=255)
                                                                                                                 gAAGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATa          >  2:640805/1‑149 (MQ=255)
                                                                                                                  aaGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGAt                                          >  1:518301/1‑116 (MQ=255)
                                                                                                                  aaGAGGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGAt                                          <  2:518301/116‑1 (MQ=255)
                                                                                                                   agagGCGCTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACa        <  2:70352/149‑1 (MQ=255)
                                                                                                                       gcgcTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTcgc                                                                  >  1:276511/1‑87 (MQ=255)
                                                                                                                       gcgcTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTcgc                                                                  <  2:276511/87‑1 (MQ=255)
                                                                                                                       gcgcTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGc    >  1:441629/1‑149 (MQ=255)
                                                                                                                         gcTTGCAGTG‑ATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCAc  >  1:148622/1‑149 (MQ=255)
                                                                                                                                   |                                                                                                                                           
GAGATGCACCCCAAGGGCGTTTTATCCTTTTTACGAGATGTGGGCATCGCCTCTGTAAAACTGGCAGAGATTAGAGGCGTAAATCCCCTGGCCACCCCGAGAATAGATGCATTGAAGAGGCGCTTGCAGTGAATCATCGTCGATATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAACCGATGCCTGATGCGACGCGGTCGCGTCTTATCAGGCCTACAGGTCGATGCCGATATGTACATCGTATTCGGCAATTAATACATAGCAC  >  NC_000913_3_pae_pgi/4234535‑4234805

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑