Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,871,606 G→C 10.6% L259V (CTG→GTG)  PP_3420 ← sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,871,6060GC10.6% 132.5 / 8.2 47L259V (CTG→GTG) PP_3420sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (22/20);  new base C (2/3);  total (24/23)
Fisher's exact test for biased strand distribution p-value = 6.66e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01

TCTGCGCAGCAGCGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTCCA  >  NC_002947/3871459‑3871749
                                                                                                                                                   |                                                                                                                                               
tctGCGCAGCAGCGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGAGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAgg                                                                                                                                                >  5:43513/1‑149 (MQ=255)
        gcagcGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCat                                                                                                                                        <  2:34409/149‑1 (MQ=255)
           gcGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCACCTgcagcaggac                                                                                                                                     <  3:8845/149‑5 (MQ=255)
            cGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATAtgt                                                                                                                                    <  6:43513/149‑1 (MQ=255)
             gTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATAtgtg                                                                                                                                   <  7:301388/149‑1 (MQ=255)
               tGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTgcc                                                                                                                                 >  7:206899/1‑149 (MQ=255)
                          tGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCat                                                                                                                                        <  3:48640/131‑1 (MQ=255)
                          tGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCat                                                                                                                                        >  4:48640/1‑131 (MQ=255)
                            ggCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGa                                                                                                                    <  4:94221/149‑1 (MQ=255)
                                 gTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATc                                                                                                                  >  2:303892/1‑146 (MQ=255)
                                 gTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAg                                                                                                               <  4:300136/149‑1 (MQ=255)
                                     ggCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACa                                                                                                           <  5:29141/149‑1 (MQ=255)
                                      gcgcTGGAGCGTATGTTGGCCAGCGGGTTACGAATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAg                                                                                                          >  1:200788/1‑149 (MQ=255)
                                          tGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGCGCCGGGCGGcacatatg                                                                                                                   <  1:4577/136‑5 (MQ=255)
                                          tGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGCGCCGGGCGGcacatatg                                                                                                                   >  2:4577/1‑132 (MQ=255)
                                                    gTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCAGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATc                                                                                             <  8:206899/148‑1 (MQ=255)
                                                            gCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCccca                                                                                    <  1:112940/149‑1 (MQ=255)
                                                                        tGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTc                                                                        >  3:73503/1‑149 (MQ=255)
                                                                         gCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTc                                                                        >  7:123654/1‑148 (MQ=255)
                                                                              gAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGt                                                                                                  <  5:283246/117‑1 (MQ=255)
                                                                              gAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGt                                                                                                  >  6:283246/1‑117 (MQ=255)
                                                                                 ccACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGcc                                                                  >  3:197625/1‑146 (MQ=255)
                                                                                  cACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGcc                                                                  >  7:68876/1‑145 (MQ=255)
                                                                                     tGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGAt                                                             >  4:107314/1‑147 (MQ=255)
                                                                                       ccGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGAt                                                             <  6:99860/145‑1 (MQ=255)
                                                                                       ccGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGAt                                                             >  5:99860/1‑145 (MQ=255)
                                                                                                 ttCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCcgc                                               >  7:205787/1‑149 (MQ=255)
                                                                                                 ttCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCcgc                                               >  2:163995/1‑149 (MQ=255)
                                                                                                     cccAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTg                                           <  1:163995/149‑1 (MQ=255)
                                                                                                       cAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGGCGAGGCGCAGATCAGCACATAGCCGCGCTg                                           >  5:329336/1‑147 (MQ=255)
                                                                                                            cAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATgcgc                                    <  2:200788/149‑1 (MQ=255)
                                                                                                                   ggTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATg                              <  7:98164/148‑1 (MQ=255)
                                                                                                                    gTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAg                            >  4:67757/1‑149 (MQ=255)
                                                                                                                    gTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAg                            <  4:197625/149‑1 (MQ=255)
                                                                                                                    gTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGAGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCGGGATGAg                            >  7:275237/1‑149 (MQ=255)
                                                                                                                     tttCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAgg                           >  2:85748/1‑149 (MQ=255)
                                                                                                                         gCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCt                                            >  5:252518/1‑128 (MQ=255)
                                                                                                                         gCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCt                                            <  6:252518/128‑1 (MQ=255)
                                                                                                                             gCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGc                     <  8:205787/147‑1 (MQ=255)
                                                                                                                               caccaGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCt                 >  6:12965/1‑149 (MQ=255)
                                                                                                                                accaGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTc                >  1:280359/1‑149 (MQ=255)
                                                                                                                                         atatgctgcACCTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGAt                               <  6:218401/122‑1 (MQ=255)
                                                                                                                                         atatgctgcACCTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGAt                               >  5:218401/4‑125 (MQ=255)
                                                                                                                                         atatgctgcACCTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAg                            >  7:71882/4‑128 (MQ=255)
                                                                                                                                         atatgctgcACCTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAg                            <  8:71882/125‑1 (MQ=255)
                                                                                                                                           ctgctgCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGAttt     >  1:164143/1‑149 (MQ=255)
                                                                                                                                              ctgcAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTcca  <  1:303892/149‑1 (MQ=255)
                                                                                                                                              ctgcAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTcc   <  8:68876/148‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
TCTGCGCAGCAGCGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGCACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTCCA  >  NC_002947/3871459‑3871749

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: ‑