Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,426,616 T→C 12.7% E93G (GAG→GGG)  PP_2127 ← sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,426,6160TC12.7% 113.1 / 7.9 47E93G (GAG→GGG) PP_2127sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base T (18/23);  new base C (3/3);  total (21/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01

GTCGCAGTGCCCCTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTGGCAATCAGT  >  NC_002947/2426471‑2426762
                                                                                                                                                 |                                                                                                                                                   
gTCGCAGTGCCCCTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCgg                                                                                                                                                  >  8:213885/1‑149 (MQ=255)
  cGCAGTGCCCCTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCGCGTCTTCTTGCACCTTGAGCATGCGCTCGGc                                                                                                                                                 >  5:222540/1‑148 (MQ=255)
   ggaGTGCCCCTGCAACTCGGCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGGGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACGTTGAGCATGCGCTCGGCC‑a                                                                                                                                              <  8:273315/147‑1 (MQ=255)
           ccTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGcc                                                                                                                                      >  6:251918/1‑149 (MQ=255)
            cTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCg                                                                                                                                     >  1:223509/1‑149 (MQ=255)
                  cTCGTCGGGCCAGTGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTCCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCGCCTTGAGCATGCGCCCGGCCGAGCT‑GGCCGAGCGCa                                                                                                                               <  1:329127/149‑1 (MQ=255)
                     gtcgGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAgg                                                                                                                             <  4:43212/148‑1 (MQ=255)
                     gtcgGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGt                                                                                                                            <  5:251918/149‑1 (MQ=255)
                     gtcgGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCCCGGCCGAGCT‑GGCCGAGCGCat                                                                                                                              <  7:273296/147‑2 (MQ=255)
                     gtcgGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCCCGGCCGAGCT‑GGCCGAGCGCat                                                                                                                              <  4:44143/147‑2 (MQ=255)
                                         gCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTTGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCgcccagg                                                                                                        <  1:88468/149‑1 (MQ=255)
                                           cACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCgcccaggcc                                                                                                      >  4:18911/1‑149 (MQ=255)
                                                 aGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTg                                                                                                <  7:213885/149‑1 (MQ=255)
                                                 aGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTg                                                                                                <  4:341592/149‑1 (MQ=255)
                                                   ttGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTa                                                                                              <  2:13474/149‑1 (MQ=255)
                                                   ttGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTa                                                                                              <  3:18911/149‑1 (MQ=255)
                                                       aGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTacaac                                                                                          <  6:211483/149‑1 (MQ=255)
                                                       aGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTacaa                                                                                           >  8:355209/1‑148 (MQ=255)
                                                       aGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTacaa                                                                                           >  2:69135/1‑148 (MQ=255)
                                                        gCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTTCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGAGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTTTacaaca                                                                                         <  8:322106/149‑1 (MQ=255)
                                                        gCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTacaa                                                                                           >  6:351525/1‑147 (MQ=255)
                                                                      aGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTgg                                                                            <  7:286727/148‑1 (MQ=255)
                                                                           ttGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGGC‑AGCTCGCCCGGGCGCACGTGGAACGACCTGGCGCCCCGGCCCAGTTGTACAACAGCACCCACCGTGGCGAcc                                                                       >  2:229472/1‑148 (MQ=255)
                                                                             gACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCaa                                                                     <  2:223509/148‑1 (MQ=255)
                                                                               ccGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTg                                                                  <  5:351525/149‑1 (MQ=255)
                                                                                      cgtcgtGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTTCAACAGCACCCAGCGAGGCGACGAACTGCAGCAcc                                                           >  7:184392/1‑149 (MQ=255)
                                                                                        tcgtGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACcag                                                         >  1:6864/1‑149 (MQ=255)
                                                                                          gtGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACcagca                                                       <  7:355209/149‑1 (MQ=255)
                                                                                           tGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACcagcag                                                      >  1:87908/1‑149 (MQ=255)
                                                                                            gCAGTTACCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAgg                                                     >  2:339055/1‑149 (MQ=255)
                                                                                                  cccGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGcc                                               >  6:253076/1‑149 (MQ=255)
                                                                                                     ggCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCggg                                            <  2:87908/149‑1 (MQ=255)
                                                                                                          aGATGCTGGCGCTCGTCTTCTTGCAACTTGAGCCTGCGCTCGTCC‑ATCTCGGCCGTGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCTTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGc                                       <  5:44003/149‑1 (MQ=255)
                                                                                                             tGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTg                                    <  6:210490/149‑1 (MQ=255)
                                                                                                               cTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGt                                  >  2:234874/1‑149 (MQ=255)
                                                                                                               cTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGt                                  <  1:234874/149‑1 (MQ=255)
                                                                                                               cTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGACC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTgg                                   <  7:152288/148‑1 (MQ=255)
                                                                                                                  gcgcTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGtt                                 <  6:222540/147‑1 (MQ=255)
                                                                                                                          cttcttGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTa                        >  3:333705/1‑148 (MQ=255)
                                                                                                                                    cTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGt             <  5:253076/149‑1 (MQ=255)
                                                                                                                                       gAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTg           <  2:353060/148‑1 (MQ=255)
                                                                                                                                          cATGCGCTCGGCC‑AGCTCGTCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCCACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGtt            >  6:64147/1‑144 (MQ=255)
                                                                                                                                          cATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGtt            <  5:64147/144‑1 (MQ=255)
                                                                                                                                           ctGCGCCCGGCCGAGCT‑GGCCGAGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTGGCAAt      >  8:123901/2‑149 (MQ=255)
                                                                                                                                             gcgcCCGGCCGAGCT‑GGCCGAGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTTGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTGGCAAt      >  2:241445/1‑147 (MQ=255)
                                                                                                                                             gcgcCCGGCCGAGCT‑GGACGAGCGCAGGTGGATCGACCTGGCGAACAGGCCCAGTTGTACAACATCACACAGCGTGGAGACCAACTGCAGCACCAGCAGGCTGGACGGGATTGCCTGGTTGTCCAGGTACAGCGCCATGTTGGCAAt      >  2:246804/1‑147 (MQ=255)
                                                                                                                                               gcTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTGGCAATCAGt  >  6:97504/1‑149 (MQ=255)
                                                                                                                                                 |                                                                                                                                                   
GTCGCAGTGCCCCTGCAACTCGTCGGGCATGCGCCGTTGCAGCCACTGCAGTTGCAGCTTGGCAGCGGTGAGCAGTTGACCGATGTCGTCGTGCAGTTCCCGGCCCAGATGCTGGCGCTCGTCTTCTTGCACCTTGAGCATGCGCTCGGCC‑AGCTCGGCCGGGCGCAGGTGGATCGACCTGGCGCCCAGGCCCAGTTGTACAACAGCACCCAGCGTGGCGACCAACTGCAGCACCAGCAGGCTGGCCGGGATTGCCTGGTTGGCCAGGTACAGCGCCATGTTGGCAATCAGT  >  NC_002947/2426471‑2426762

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: ‑