Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,194,755 C→T E449K (GAG→AAG)  thiC ← phosphomethylpyrimidine synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,194,7550CT96.7% 105.3 / ‑3.6 30E449K (GAG→AAG) thiCphosphomethylpyrimidine synthase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (13/16);  total (14/16)
Fisher's exact test for biased strand distribution p-value = 4.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01

ACGTAACAGAGCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTCGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCAGCGTATGCAGCTCGGCAAACTGCGCTTCATCGTTGGCGTCC  >  NC_000913/4194613‑4194894
                                                                                                                                              |                                                                                                                                           
aCGTAACAGAGCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCata                                                                                                                                      <  1:121122/150‑1 (MQ=255)
     aCAGAGCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTgcgg                                                                                                                                >  2:606157/1‑151 (MQ=255)
     aCAGAGCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTgcgg                                                                                                                                >  2:544931/1‑151 (MQ=255)
       agagCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTgcggcg                                                                                                                              <  1:205074/151‑1 (MQ=255)
              cgcgCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGatcat                                                                                                                        <  1:553917/150‑1 (MQ=255)
                 gcAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTg                                                                                                                     <  2:194419/150‑1 (MQ=255)
                 gcAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGc                                                                                                                    >  2:630521/1‑151 (MQ=255)
                           cAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGt                                                                                                          >  2:510314/1‑151 (MQ=255)
                            aGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTg                                                                                                         <  2:126274/151‑1 (MQ=255)
                                      cgccgcACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCt                                                                                               >  1:200692/1‑151 (MQ=255)
                                      cgccgcACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTCGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCt                                                                                               >  2:241239/1‑151 (MQ=255)
                                       gccgcACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCtt                                                                                              <  1:566683/151‑1 (MQ=255)
                                       gccgcACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCtt                                                                                              <  2:335857/151‑1 (MQ=255)
                                          gcACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCaa                                                                                           <  1:5842/151‑1 (MQ=255)
                                                           gAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTc                                                                           >  1:203777/1‑150 (MQ=255)
                                                            aaGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCat                                                                         >  2:253267/1‑151 (MQ=255)
                                                            aaGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCat                                                                         >  2:451815/1‑151 (MQ=255)
                                                               tGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATAtt                                                                      >  2:192108/1‑151 (MQ=255)
                                                                ggTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATAtt                                                                      <  2:14364/150‑1 (MQ=255)
                                                                   cATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCa                                                                  <  2:492070/151‑1 (MQ=255)
                                                                         ccGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAAt                                                            >  2:174338/1‑151 (MQ=255)
                                                                         ccGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAAt                                                            <  1:30553/151‑1 (MQ=255)
                                                                              gcAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGGCATATTCCCAGGCAATTTTgg                                                       >  2:226755/1‑151 (MQ=255)
                                                                               cAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTgg                                                       <  2:551322/150‑1 (MQ=255)
                                                                                aaTATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGt                                                      <  2:341138/150‑1 (MQ=255)
                                                                                          gTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCa                                           <  1:83128/151‑1 (MQ=255)
                                                                                                  ccccAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTCGTCAGTTCGCCCAGCGTATg                                    >  2:188985/1‑150 (MQ=255)
                                                                                                                           tGGCAGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTAGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCAGCGTATGCAGCTCGGCAAACTGCGCTTCATCGt          >  2:249324/1‑151 (MQ=255)
                                                                                                                               aGTGCTCTAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCAGCGTATGCAGCTCGGCAAACTGCGCTTCATCGTTGGc      <  1:483418/151‑1 (MQ=255)
                                                                                                                                     ctAACTCCTTGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCAGCGTATGCAGCTCGGCAAACTGCGCTTCATCGTTGGCGTcc  <  2:482384/149‑1 (MQ=255)
                                                                                                                                              |                                                                                                                                           
ACGTAACAGAGCATCGCGCAGCCAAACCAGCCAATCATCGCCGCACCAATCCCCGACGTGAAGTGGTCATAGCCCGGCGCAATATCGGTAGTTAGCGGCCCCAGAGTGTAAAACGGCGCTTCGTGGCAGTGCTCTAACTCCTCGGTCATATTGCGGCGGATCATCTGCATCGGCACGTGGCCTGGGCCTTCAATCATCACCTGCACGTCATATTCCCAGGCAATTTTGGTCAGTTCGCCCAGCGTATGCAGCTCGGCAAACTGCGCTTCATCGTTGGCGTCC  >  NC_000913/4194613‑4194894

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑