Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913_3_hsa_tpiA 1,197,502 C→T G11R (GGA→AGA)  ymfD ← e14 prophage; putative SAM‑dependent methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_hsa_tpiA1,197,5020CT98.0% 160.9 / ‑5.5 53G11R (GGA→AGA) ymfDe14 prophage; putative SAM‑dependent methyltransferase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  major base T (24/26);  minor base G (0/1);  total (25/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.62e-01

AATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGA  >  NC_000913_3_hsa_tpiA/1197363‑1197646
                                                                                                                                             |                                                                                                                                                
aaTTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCAtatt                                                                                                                                         <  2:249874/149‑1 (MQ=255)
      tcaGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGtt                                                                                                                                   <  2:484780/149‑1 (MQ=255)
          aaTATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCaaa                                                                                                                               >  1:294903/1‑149 (MQ=255)
              tCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCaa                                                                                                                           <  1:394740/149‑1 (MQ=255)
               cTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAg                                                                                                                          >  1:489037/1‑149 (MQ=255)
                tAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATATAGAG‑GGCATCGTCTGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGt                                                                                                                         >  2:214223/1‑149 (MQ=255)
                 aaGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTa                                                                                                                        >  1:543222/1‑149 (MQ=255)
                    ttttCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCa                                                                                                                     <  1:431384/149‑1 (MQ=255)
                       tCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTc                                                                                                                  <  1:811193/149‑1 (MQ=255)
                              ccAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAAt                                                                                                           <  2:1122424/149‑1 (MQ=255)
                                    tCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTAtt                                                                                                     >  1:244195/1‑149 (MQ=255)
                                    tCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTAtt                                                                                                     >  1:244180/1‑149 (MQ=255)
                                      aaGGTCGCGGCCAGTTTCGTCAATGCTTCTAATATACTAGAAAAGATATGTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTATCTGAGCGAATA‑TTAACTCTGTGCAGATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTAtttt                                                                                                   <  2:705576/149‑1 (MQ=255)
                                             tGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGaa                                                                                            >  1:1070920/1‑149 (MQ=255)
                                                 cATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAAt                                                                                        >  1:318526/1‑149 (MQ=255)
                                                   tttttCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTc                                                                                      <  2:294903/149‑1 (MQ=255)
                                                    ttttCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTGTTGCTGCATTCTCTGAGCGAATA‑TTAACTCGGTGTATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCt                                                                                     <  1:1287452/149‑1 (MQ=255)
                                                         tcAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttttat                                                                                >  1:1389653/1‑149 (MQ=255)
                                                          cAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttttatt                                                                               <  2:6610/149‑1 (MQ=255)
                                                               cTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGAATTATATAAATAAATACTTGCCTCCATG‑ATAAAATAGTTCAAAGCAAATACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATc                                                                          >  1:1057375/1‑149 (MQ=255)
                                                                   tAATATACTCGCAAAGAGTTCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTCCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTcc                                                                      <  2:316066/149‑1 (MQ=255)
                                                                    aaTATACTTGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCg                                                                     <  2:98669/149‑1 (MQ=255)
                                                                    aaTATACTCGTAAAGAAATC‑AGAGAGACATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCg                                                                     <  1:839376/149‑1 (MQ=255)
                                                                      tataCTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCggg                                                                   >  1:416078/1‑149 (MQ=255)
                                                                           tCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTCTCTTCCGGGttttc                                                              >  2:1365500/1‑148 (MQ=255)
                                                                           tCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCTGGGTtttt                                                              >  2:1289331/1‑149 (MQ=255)
                                                                           tCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACAATTCAATTAATGTTATTTTTAGTGAAAAATTCTGTTATTTTATTGTCTGGGAtttt                                                              >  2:1342513/1‑149 (MQ=255)
                                                                                  ggtatCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgact                                                       <  2:815485/147‑1 (MQ=255)
                                                                                       ttAGAG‑GGGTGCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAAATCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTAGTACTCCGGGGTTTTTCCgacttgact                                                  <  2:95703/148‑1 (MQ=255)
                                                                                        tAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCtttt                                                                                  >  2:679651/1‑116 (MQ=255)
                                                                                        tAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCtttt                                                                                  <  1:679651/116‑1 (MQ=255)
                                                                                              ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttttatttta                                                                            <  1:1074396/117‑1 (MQ=255)
                                                                                              ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttttatttta                                                                            >  2:1074396/1‑117 (MQ=255)
                                                                                                 aTCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATATTTAGTGAAAAATTCTTTTATTTTATTGTCCGGGATTTTTCCGACTTGACTTTCAGTTCt                                         >  2:1103018/1‑149 (MQ=255)
                                                                                                  tCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTg                                        <  2:1389653/149‑1 (MQ=255)
                                                                                                   cGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATTTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTgg                                       <  2:87450/149‑1 (MQ=255)
                                                                                                   cGTATGAGGTTTTGCTGCAGTCTCTGAGCGAATA‑TTAACTCAGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGTGATTTTTCCGACTTGACTTTCAGTTCTgg                                       <  2:951879/149‑1 (MQ=255)
                                                                                                        gAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGTGATTTTTCCGACTTGACTTTCTGTTATGTGCTTa                                  >  2:1323531/1‑149 (MQ=255)
                                                                                                          ggTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAAc                                <  2:1217135/149‑1 (MQ=255)
                                                                                                           gTTTTGCTGTATTCTCTGAGCGAATA‑TTAACTCTGTGGATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACt                               <  2:466291/149‑1 (MQ=255)
                                                                                                           gTTGTGCTGCATTCTCGCAGCGAATA‑TTAAGTCTGTGCATATTATAGTTAAAAGCAAGTAACATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACt                               <  2:468129/149‑1 (MQ=255)
                                                                                                                 ctgcATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTa                                                                                                                        >  1:1080329/1‑54 (MQ=255)
                                                                                                                 ctgcATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTa                                                                                                                        <  2:1080329/54‑1 (MQ=255)
                                                                                                                  tgcATTCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaag                        >  1:804423/1‑149 (MQ=255)
                                                                                                                      ttCTCTGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaaa                    >  1:853612/1‑149 (MQ=255)
                                                                                                                         tctGAGCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGat                 >  1:349372/1‑149 (MQ=255)
                                                                                                                             aGCGAATA‑TTAACTCTGTGCGTATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGAATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGataata             <  2:391355/149‑1 (MQ=255)
                                                                                                                              gCGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATAc            <  2:479537/149‑1 (MQ=255)
                                                                                                                               cGAATA‑TTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATAcc           >  1:668849/1‑149 (MQ=255)
                                                                                                                                      ttAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACcactcac     >  1:58588/1‑149 (MQ=255)
                                                                                                                                       tAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGCGACGGTTTCATTTATTTTCCCTTTCAGGATTTTTCCGACTTGACTGTCAGTACTGTGCTTAACTGTCAAAGCAAAGATAATACcactcact    >  1:702641/1‑149 (MQ=255)
                                                                                                                                         aCTCTGTGCATATTATAGTTCAAAGCAAGTATCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTga  <  2:244195/149‑1 (MQ=255)
                                                                                                                                         aCTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTga  <  2:244180/149‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                                
AATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAG‑GGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATA‑TTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGA  >  NC_000913_3_hsa_tpiA/1197363‑1197646

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑