Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,103,877 G→T 9.9% L135F (TTG→TTT)  PP_2714 → sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,103,8770GT 9.9% 113.9 / 2.3 38L135F (TTG→TTT) PP_2714sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (17/17);  new base T (2/2);  total (19/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGAAAGCAAGCTGGCATTCCAGGTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTGGGCTGCGATCGG  >  NC_002947/3103730‑3104023
                                                                                                                                                    |                                                                                                                                                   
cGAAAGCAAGCTGGCATTCCAGGTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTtgc                                                                                                                                                    <  3:294170/149‑1 (MQ=255)
       aagcTGGCATTCCAGGTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTtgccggtgcc                                                                                                                                             >  2:289422/1‑149 (MQ=255)
           tGGCATTCCAGGTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑a                                                                                                                                         >  7:21563/1‑148 (MQ=255)
              cATTCCAGGTCTGGGGTGAAGGAATGGCGTTGCTGGTGCATACAACCAGTGCGACACCCATCGACCAACAAACAACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCTGTTAACAATTG‑CTCGGTTTCGTTTTGACTGTGCCTG‑aaaa                                                                                                                                      >  4:115312/1‑148 (MQ=255)
                      gTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCCCTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAATAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCt                                                                                                                             >  3:310105/1‑149 (MQ=255)
                       tCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTgg                                                                                                                               <  8:95172/146‑1 (MQ=255)
                       tCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTgg                                                                                                                               >  7:95172/1‑146 (MQ=255)
                           gggTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATc                                                                                                                         <  1:2734/148‑1 (MQ=255)
                             gTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTTCCGGCACCGG‑CAAAac                                                                                                                                    <  3:314012/135‑1 (MQ=255)
                             gTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTTCCGGCACCGG‑CAAAac                                                                                                                                    >  4:314012/1‑135 (MQ=255)
                             gTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCtgg                                                                                                                      <  3:144396/149‑1 (MQ=255)
                              tGAAGGCATTGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGc                                                                                                                              <  7:334044/140‑1 (MQ=255)
                                   gCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTgggg                                                                                                                <  8:21563/149‑1 (MQ=255)
                                        gCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGGCCGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGc                                                                                                            <  1:289422/149‑1 (MQ=255)
                                          gTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGtg                                                                                                         <  3:237157/149‑1 (MQ=255)
                                               tGGTGCATACACCCATTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTTGCGGTGAACAATTT‑AGCGTTTTATTTTTTACGTTTCCGT‑AAAAAAACTTGCTTATCTGGGTGGGGGATCGTgatgat                                                                                                    <  3:115312/149‑1 (MQ=255)
                                                 gTGCATACACCCAGTGCGCCACCCATCGACCCAGCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGAtgt                                                                                                  <  4:93115/149‑1 (MQ=255)
                                                 gTGCATACACCCAGTGCGCCACCCATCGACCCAACACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGAtgt                                                                                                  <  4:93113/149‑1 (MQ=255)
                                                       acacCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTa                                                                                            >  5:49266/1‑149 (MQ=255)
                                                       acacCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTa                                                                                            >  7:63528/1‑149 (MQ=255)
                                                         acCCAGTGCGCTACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTtgccggtgccg                                                                                                                                            >  8:181524/1‑100 (MQ=255)
                                                         acCCAGTGCGCCAACCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑GGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACg                                                                                          >  7:73234/1‑149 (MQ=255)
                                                                    caaccATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑GGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGAc                                                                               <  8:73234/146‑1 (MQ=255)
                                                                                 accaccCCCTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGAACCTAAATCATTTGCGATACGCCGGGAACGACCCCAACGTACGc                                                                   >  1:306629/1‑148 (MQ=255)
                                                                                 accaccCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTtgc                                                                                                                                                    <  1:325717/68‑1 (MQ=255)
                                                                                 accaccCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTtgc                                                                                                                                                    >  2:325717/1‑68 (MQ=255)
                                                                                 accaccCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGcc                                                                  <  8:63528/149‑1 (MQ=255)
                                                                                   cacccacTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGt                                                                       <  1:128230/142‑1 (MQ=255)
                                                                                   cacccacTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGAGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGt                                                                       >  2:128230/1‑142 (MQ=255)
                                                                                         cTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTg                                                          <  6:49266/149‑1 (MQ=255)
                                                                                             tCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTcc                                                      >  1:90706/1‑149 (MQ=255)
                                                                                                   gTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGAc                                                                               <  5:289647/118‑1 (MQ=255)
                                                                                                   gTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGAc                                                                               >  6:289647/1‑118 (MQ=255)
                                                                                                          gACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTgg                                         >  8:65444/1‑149 (MQ=255)
                                                                                                            cTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTgg                                         >  6:135537/1‑147 (MQ=255)
                                                                                                                                  tGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGgt                 >  5:250296/1‑149 (MQ=255)
                                                                                                                                       gcgGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTgg             <  6:250296/149‑1 (MQ=255)
                                                                                                                                        cgGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTggg            >  7:143792/1‑149 (MQ=255)
                                                                                                                                           cagtgTTTTTCCGGCACCGGCAAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTGGGCt          >  2:50554/5‑149 (MQ=255)
                                                                                                                                             tCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCAGCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTGGGCTGc        <  4:310105/148‑1 (MQ=255)
                                                                                                                                             tCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACAGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCATGGCGTTGGCACTGCTGGTGTGGGCTGc        >  5:282482/1‑148 (MQ=255)
                                                                                                                                               gTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGgt                 >  4:129614/1‑137 (MQ=255)
                                                                                                                                               gTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGgt                 <  3:129614/137‑1 (MQ=255)
                                                                                                                                                   tgccggtgccgg‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTGGGCTGCGATCgg  <  5:135537/148‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
CGAAAGCAAGCTGGCATTCCAGGTCTGGGGTGAAGGCATGGCGTTGCTGGTGCATACACCCAGTGCGCCACCCATCGACCCACCACCCACTGCTCCAGGGTTCTACGACTTTTCCAGTGGCGGTGAACAATGG‑CGCGGTTTCGTTTTGCCGGTGCCGG‑AAAAACACTGGCTTATCTGGGTGGGGGAGCGTGATGATGTGCGCTACGACCTGATCGACCGCATCGTTCGCCACACGCTGTTCCCGTTCCTGCTTGGCAGCCTGGCGTTGGCACTGCTGGTGTGGGCTGCGATCGG  >  NC_002947/3103730‑3104023

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑