Predicted mutation
evidence seq id position mutation freq annotation gene description
RA AP009048 1,303,631 C→T 100% Q246Y (CAG→TAT)  oppA → oligopeptide transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*AP0090481,303,6310CT100.0% 246.1 / NA 82Q246Y (CAG→TAT) oppAoligopeptide transporter subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (39/43);  total (39/43)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATC  >  AP009048/1303566‑1303696
                                                                 |                                                                 
tAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTa                                                              <  1:3725458/71‑1 (MQ=255)
tAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTa                                                              <  1:3698395/71‑1 (MQ=255)
  aacgaacgAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAc                                                            >  1:1446333/1‑71 (MQ=255)
  aacgaacgAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAc                                                            >  1:4882407/1‑71 (MQ=255)
   acgaacgaATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc                                                           >  1:4235488/1‑71 (MQ=255)
       acgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTAtt                                                       >  1:3831414/1‑71 (MQ=255)
       acgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTAtt                                                       >  1:4786599/1‑71 (MQ=255)
        cgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTAttt                                                      <  1:2358272/71‑1 (MQ=255)
         gaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTg                                                     >  1:778135/1‑71 (MQ=255)
          aaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGc                                                    <  1:2062934/71‑1 (MQ=255)
           aTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:2821222/71‑1 (MQ=255)
           aTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   >  1:1828222/1‑71 (MQ=255)
           aTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:2134416/71‑1 (MQ=255)
           aTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:402481/71‑1 (MQ=255)
            tCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCt                                                  <  1:3857514/71‑1 (MQ=255)
             cGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTa                                                 >  1:2242644/1‑71 (MQ=255)
                tCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTg                                              >  1:2727104/1‑71 (MQ=255)
                tCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTg                                              >  1:205916/1‑71 (MQ=255)
                 cTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGc                                                    >  1:1852238/1‑64 (MQ=255)
                 cTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGc                                             >  1:3766045/1‑71 (MQ=255)
                    gAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCt                                            <  1:5256587/69‑1 (MQ=255)
                     aaCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTAt                                                        >  1:2642271/1‑56 (MQ=255)
                     aaCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:3126978/1‑71 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAtt                                               >  1:489344/1‑64 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:203021/1‑70 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:4311221/1‑70 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:4385107/1‑70 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg                                        <  1:2197548/71‑1 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg                                        <  1:2332635/71‑1 (MQ=255)
                      aCGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg                                        <  1:5142019/71‑1 (MQ=255)
                        gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:2451768/1‑68 (MQ=255)
                        gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt                                         >  1:1250730/1‑68 (MQ=255)
                        gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGa                                       <  1:2930703/70‑1 (MQ=255)
                          aGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:4665251/56‑1 (MQ=255)
                          aGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGt                                    <  1:1386866/71‑1 (MQ=255)
                          aGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGt                                    <  1:1392941/71‑1 (MQ=255)
                          aGCCCGACCTACTGGAACAACGAGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGt                                    <  1:2860742/71‑1 (MQ=255)
                           gCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGt                                    >  1:277888/1‑70 (MQ=255)
                            cccGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTa                                  <  1:5354969/71‑1 (MQ=255)
                            cccGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTa                                  >  1:3451165/1‑71 (MQ=255)
                              cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc                                <  1:177269/71‑1 (MQ=255)
                               gACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCg                               <  1:1768947/71‑1 (MQ=255)
                                aCCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGa                              >  1:2485438/1‑71 (MQ=255)
                                aCCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGa                              <  1:69466/71‑1 (MQ=255)
                                 ccTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCtt                                           >  1:5104467/1‑57 (MQ=255)
                                 ccTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGAt                             <  1:985423/71‑1 (MQ=255)
                                 ccTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGAt                             <  1:1277910/71‑1 (MQ=255)
                                   tACTGGAACAACGCGAAAACCGTTATTAACTATGTaa                                                             <  1:2537573/37‑1 (MQ=37)
                                   tACTGGAACAACGCGAAAACCGTTATTAACTATGTaa                                                             <  1:1737783/37‑1 (MQ=37)
                                   tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:2272121/47‑1 (MQ=39)
                                   tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGt                           >  1:290246/1‑71 (MQ=255)
                                    aCTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGt                           >  1:3229007/1‑70 (MQ=255)
                                     cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCa                         <  1:3116914/71‑1 (MQ=255)
                                     cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCa                         <  1:546512/71‑1 (MQ=255)
                                     cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCa                         <  1:2241238/71‑1 (MQ=255)
                                      tGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAt                                                <  1:3410569/47‑1 (MQ=39)
                                      tGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGa                                       <  1:1605093/56‑1 (MQ=255)
                                      tGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCaa                        >  1:219406/1‑71 (MQ=255)
                                       ggAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAAc                       >  1:2049020/1‑71 (MQ=255)
                                        gAACAACGCGAAAACCGTTATTAACTATGTAACCTAtt                                                       >  1:2403906/1‑38 (MQ=37)
                                          acaacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGc                    <  1:2102461/71‑1 (MQ=255)
                                          acaacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGc                    <  1:3092586/71‑1 (MQ=255)
                                            aacGCGAAAACCGTTATTAACTATGTAACCTATTTGcc                                                   <  1:2821761/38‑1 (MQ=37)
                                            aacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGc                                             <  1:3427799/44‑1 (MQ=38)
                                            aacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTa                                  <  1:3212723/55‑1 (MQ=255)
                                              cgcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTAcc                >  1:2600161/1‑71 (MQ=255)
                                               gcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGt                           >  1:966696/1‑59 (MQ=255)
                                               gcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCg               >  1:3042467/1‑71 (MQ=255)
                                                cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTg                                              >  1:2301593/1‑39 (MQ=37)
                                                cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAg                                     >  1:4256024/1‑48 (MQ=39)
                                                cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt              <  1:1658418/71‑1 (MQ=255)
                                                cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt              <  1:1136250/71‑1 (MQ=255)
                                                 gAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCg               >  1:318485/1‑69 (MQ=255)
                                                 gAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCg               >  1:551386/1‑69 (MQ=255)
                                                  aaaaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAg            <  1:2767841/71‑1 (MQ=255)
                                                  aaaaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAg            <  1:927765/71‑1 (MQ=255)
                                                   aaaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAgt           >  1:61411/1‑71 (MQ=255)
                                                        gTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAg            <  1:5052524/65‑1 (MQ=255)
                                                           attaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAt   >  1:3172265/1‑71 (MQ=255)
                                                           attaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAt   >  1:5310901/1‑71 (MQ=255)
                                                            ttaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATc  <  1:219700/71‑1 (MQ=255)
                                                            ttaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATc  <  1:3311404/71‑1 (MQ=255)
                                                                 |                                                                 
TAAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAATC  >  AP009048/1303566‑1303696

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: