Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,387,902 T→C 14.3% *198W (TGA→TGG)  PP_1209 ← cold‑shock protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,387,9020TC14.3% 62.0 / 3.9 28*198W (TGA→TGG) PP_1209cold‑shock protein
Reads supporting (aligned to +/- strand):  ref base T (13/11);  new base C (2/2);  total (15/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.43e-01

CCCCGCCTCCTCATTATTGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGAAAGTGCACGAAGATGTC  >  NC_002947/1387761‑1388039
                                                                                                                                             |                                                                                                                                         
ccccGCCTCCTCATTATTGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCTCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGGTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAAcggcg                                                                                                                                   <  1:494503/150‑1 (MQ=255)
  ccGCCTCCTCATTATTGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGACCAAcggctga                                                                                                                                 <  2:182314/150‑4 (MQ=255)
               attGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCAc                                                                                                                    <  1:113555/150‑1 (MQ=255)
                 tGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGt                                                                                                                  >  2:130066/1‑150 (MQ=255)
                          ccAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCt                                                                                                         <  2:146609/150‑1 (MQ=255)
                            aGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGc                                                                                                       >  1:544111/1‑150 (MQ=255)
                            aGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGc                                                                                                       >  2:138048/1‑150 (MQ=255)
                                         cGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTcgc                                                                                          <  2:544111/150‑1 (MQ=255)
                                               gccagccCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCa                                                                                    >  2:749208/1‑150 (MQ=255)
                                               gccagccCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCa                                                                                    <  1:698800/150‑1 (MQ=255)
                                                      cccACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGa                                                                             >  2:13516/1‑150 (MQ=255)
                                                           aGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTc                                                                                                              <  2:574507/112‑1 (MQ=255)
                                                           aGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTc                                                                                                              >  1:574507/1‑112 (MQ=255)
                                                              tATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCa                                                                     <  1:138048/150‑1 (MQ=255)
                                                                              ggTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGAc                                                     <  1:130066/150‑1 (MQ=255)
                                                                               gTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGAcc                                                    >  1:765511/1‑150 (MQ=255)
                                                                                    gcaCGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAAc                                                                         >  2:27954/1‑124 (MQ=255)
                                                                                    gcaCGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAAc                                                                         <  1:27954/124‑1 (MQ=255)
                                                                                         gCCCTTGTGGGCGCTGGTTTTCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGt                                          <  2:794214/150‑1 (MQ=255)
                                                                                          cccTTGTGGGCGCCGGTTTGCCGTTGATAGCGTCGGCCGGTCCGCCGTTGGTCAACGGCGGTTTACTGAAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCCGGCCTTCGACCAGAATGCGGTg                                         >  2:6552/1‑150 (MQ=255)
                                                                                                      cTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACcgcg                             >  1:144630/1‑150 (MQ=255)
                                                                                                                gTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGa                   >  1:380539/1‑150 (MQ=255)
                                                                                                                  tGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGaaa                 <  1:807041/150‑1 (MQ=255)
                                                                                                                       gCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGAAAGTGCa            >  2:712835/1‑150 (MQ=255)
                                                                                                                             gCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGAAAGTGCACGAAGa      >  2:71483/1‑150 (MQ=255)
                                                                                                                                 aaccgCCGTTGACCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGAAAGTGCACGAAGATGTc  >  2:497901/5‑150 (MQ=255)
                                                                                                                                   ccgCCGTTGACCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGAc                                                     >  1:765143/3‑97 (MQ=255)
                                                                                                                                   ccgCCGTTGACCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGAc                                                     <  2:765143/95‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                         
CCCCGCCTCCTCATTATTGAGTTGTTCCAGGCTGCTATCGCCGGCAAGCCAGCCCCCACAGGTATGATGCTGCCTTCAGGTGCAGCACGGCCCTTGTGGGCGCTGGTTTGCCGTTGATAGCGTCGGCCGGTCAGCCGTTGGTCAACGGCGGTTTACTGCAACCACGTCTTCGGCCTGCAGGCCCTTGTCGCGGTGCATCACCGAAAACTCCACGCGCTGGCCTTCGACCAGAATGCGGTGGCCCTCACCGCGGATGGCCCGAAAGTGCACGAAGATGTC  >  NC_002947/1387761‑1388039

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