Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913_3_hsa_tpiA 2,106,741 A→T 100% S162S (TCT→TCA)  wbbH ← O‑antigen polymerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_hsa_tpiA2,106,7410AT95.2% 128.9 / 0.1 42coding (486/1167 nt)wbbHO‑antigen polymerase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (24/16);  minor base . (1/1);  total (25/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

ACTCTATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACT  >  NC_000913_3_hsa_tpiA/2106595‑2106878
                                                                                                                                                  |                                                                                                                                         
aCTATATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTAGTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGa                                                                                                                                         <  2:566448/149‑1 (MQ=255)
  tctATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTCTTAGTCAATTTTTTTGAcc                                                                                                                                       >  1:303955/1‑149 (MQ=255)
  tctATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTT‑GACCa                                                                                                                                      >  2:107390/1‑149 (MQ=255)
     aTTAACACCTACGATGAATGCATAAGATATGAGAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCaaa                                                                                                                                    <  2:382842/149‑1 (MQ=255)
      ttAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTTACCaaat                                                                                                                                   >  2:511474/1‑149 (MQ=255)
             cTACGATGAATGCATAAGAGATGATCACCATAAAAACAATTTGCTTACCAGTATTGAGTATAAATGCATCGATGAATGCAATAAAAACAATAAAAGTAAAAATTTTATATATCTTGGTATTATTAAATGTTTTTAATAAATtaaataaa                                                                                                                            >  2:169195/1‑149 (MQ=255)
              tACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAg                                                                                                                           >  2:497559/1‑149 (MQ=255)
                  aTGAATGCGTAAGATATGATAACCAGATAGACAAGTTGCTCACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTCACGTAAATGTTTTACTTACTTTTGTACTAGTAAATTTTTGTGACTTATTAAGTAAAGCaaa                                                                                                                       <  2:247987/149‑1 (MQ=255)
                          aTAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTGGTATTAGTAAATTTTTTTGCCTCAATAAATAAAGAAAAagtcgtga                                                                                                               >  1:495312/1‑147 (MQ=255)
                             agagATGATAACCATAAAGACAATTTGCTTACCAGTAGTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAATAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGaa                                                                                                            <  2:69926/149‑1 (MQ=255)
                                 atgatAAACAATAAGACAATTTGCTTAACAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGAAAAAGTAGTTAGAATGAt                                                                                                        <  2:274448/149‑1 (MQ=255)
                                   gatAACCATAAGGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTg                                                                                                      >  1:400459/1‑149 (MQ=255)
                                      aaCCATAAAGACAATTTGCCTACCAGTATTCCGTACAATCGCAAACATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCt                                                                                                   <  1:245187/149‑1 (MQ=255)
                                        ccATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTGAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATTAATAAAGCAAAAGTAGTTACAATAATTTTCTGc                                                                                                 >  2:630218/1‑149 (MQ=255)
                                          aTAAAGACACTTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTCAATGTTTTAATTACCTTTGTATTAGTAAATGTTTTTCTTCAAATAAATAAAGCAAAACTAGATAGAATAATTAGCTGCAt                                                                                               >  2:60215/1‑149 (MQ=255)
                                                     ttGCTTAACAGTAGTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTgaga                                                                                    <  2:297169/149‑1 (MQ=255)
                                                         ttACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAAtt                                                                                >  1:580627/1‑149 (MQ=255)
                                                         ttACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGAATGCTgcagaatt                                                                                >  1:599412/1‑142 (MQ=255)
                                                           aCCAGTATTCAGTATAATTGCAAAGATAAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTc                                                                              <  1:490317/149‑1 (MQ=255)
                                                            ccAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTTTTTTTTTTAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAGTTTCt                                                                             >  2:691846/1‑149 (MQ=255)
                                                             cAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCtt                                                                            >  1:411881/1‑149 (MQ=255)
                                                             cAGTAATCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCtt                                                                            <  1:301280/149‑1 (MQ=255)
                                                                tATTTAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGAt                                                                         <  2:333251/149‑1 (MQ=255)
                                                                       tataATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTGGAagtggcgt                                                                  >  2:512740/1‑145 (MQ=255)
                                                                                aaaGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAACGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAAATTCTTGATGTGTCTTCAACATCaa                                                         >  2:101507/1‑148 (MQ=255)
                                                                                aaaGATGAATACAATAAAAACAAGTAAAGTAAATGGTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAg                                                         <  2:309848/149‑1 (MQ=255)
                                                                                        aTACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATGAGTAAATTTTTTTGACCCCATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATctctg                                                 >  1:137863/1‑148 (MQ=255)
                                                                                         tACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTa                                                >  1:612429/1‑149 (MQ=255)
                                                                                         tACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTT‑GACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTAt                                               <  1:107390/149‑1 (MQ=255)
                                                                                           cAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATc                                              <  1:490852/149‑1 (MQ=255)
                                                                                                     aagtaaagtaAATGTTTTACTTCCCTTTGTATTAGTAAATTTTTTTTAATAAATAAATACAGGAAAAATAGTTAGATTGATTCACTTCATGTATGCTTAGGAATTTCTTGATGTGTCTTCAACATCTGCATCCCTTATCAAATTCatat                                    >  2:60896/1‑149 (MQ=255)
                                                                                                      agtaaagtaaATGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGTGAAATGTCGTGTTATGTCTTCAACATACACATCCCTCATCACATTCatatc                                   >  2:499636/1‑148 (MQ=255)
                                                                                                       gtaaagtaaaTGTTTTACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAg                                  >  2:92372/1‑149 (MQ=255)
                                                                                                           agtaaaTGTTATACTTACCTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCAGGGATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCtaa                              <  1:202911/149‑1 (MQ=255)
                                                                                                                             cTTTGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACt            >  2:28761/1‑149 (MQ=255)
                                                                                                                              tttGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTg           <  1:92372/149‑1 (MQ=255)
                                                                                                                              tttGTATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTg           >  1:320870/1‑149 (MQ=255)
                                                                                                                                  tATTAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAg       >  1:550347/1‑149 (MQ=255)
                                                                                                                                    ttAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGtt     <  1:508891/149‑1 (MQ=255)
                                                                                                                                    ttAGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGtt     >  1:396150/1‑149 (MQ=255)
                                                                                                                                      aGTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTAc   <  2:345734/149‑1 (MQ=255)
                                                                                                                                       gTAAATTTTTTTGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCACTTATCAAATTCATATATCTCAGTAAGCTGGTCCCGAGCTGGTAGTTACt  >  2:75748/1‑149 (MQ=255)
                                                                                                                                                  |                                                                                                                                         
ACTCTATTAACACCTACGATGAATGCATAAGAGATGATAACCATAAAGACAATTTGCTTACCAGTATTCAGTATAATTGCAAAGATGAATACAATAAAAACAAGTAAAGTAAATGTTTTACTTACCTTTGTATTAGTAAATTTTTTAGACCAAATAAATAAAGCAAAAGTAGTTAGAATGATTGGCTGCATGTATGCTGAGAAATTTCTTGATGTGTCTTCAACATCAGCATCTCTTATCAAATTCATATAGCTAAGTAAGCTAGTCCCGAACTGGTAGTTACT  >  NC_000913_3_hsa_tpiA/2106595‑2106878

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: ‑