Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,852,397 T→A 15.7% Q312L (CAG→CTG)  PP_2505 ← GAF domain/GGDEF domain‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,852,3970TA15.7% 118.4 / 14.3 51Q312L (CAG→CTG) PP_2505GAF domain/GGDEF domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (21/22);  new base A (4/4);  total (25/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.54e-01

GAATGTGATGCGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCTACGAAT  >  NC_002947/2852251‑2852543
                                                                                                                                                  |                                                                                                                                                  
gAATGTGATGCGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTgg                                                                                                                                                  <  8:122515/149‑1 (MQ=255)
     tgATGCGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACGCTGGGTGAg                                                                                                                                             <  6:98714/149‑1 (MQ=255)
     tgATGCGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAg                                                                                                                                             <  5:234104/149‑1 (MQ=255)
          cGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAggg                                                                                                                                        <  2:237167/149‑1 (MQ=255)
          cGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAACCTGCTCACCCAGGGTGAGCAgat                                                                                                                                        <  2:235219/149‑3 (MQ=255)
          cGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAACCTGCTCACCCAGGGTGAGCAgat                                                                                                                                        <  2:231229/149‑3 (MQ=255)
           gTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGgc                                                                                                                                       >  4:270761/1‑149 (MQ=255)
             aCCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGt                                                                                                                                                <  5:52545/138‑1 (MQ=255)
             aCCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGt                                                                                                                                                >  6:52545/1‑138 (MQ=255)
               ccTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCAc                                                                                                                                   >  6:202921/1‑149 (MQ=255)
                 tCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCAGGGTGAGCAga                                                                                                                                         >  2:161691/1‑140 (MQ=255)
                 tCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCAGGGTGAGCAga                                                                                                                                         <  1:161691/141‑2 (MQ=255)
                     ggATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATg                                                                                                                             <  5:305037/149‑1 (MQ=255)
                                    aaCTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTc                                                                                                              >  6:307885/1‑149 (MQ=255)
                                           tCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGgc                                                                                                       >  5:102912/1‑149 (MQ=255)
                                           tCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGgc                                                                                                       >  1:169843/1‑149 (MQ=255)
                                            cacgATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGACACCGCCGTCACCGCGCTTTATTGCATCAACAATATGCTCACCCTTGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCATCCGAgggac                                                                                                      >  4:192496/4‑147 (MQ=255)
                                                      cTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAAc                                                                                            <  5:307885/149‑1 (MQ=255)
                                                       tGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGgccgcc                                                                                                   <  3:111336/141‑1 (MQ=255)
                                                       tGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGgccgcc                                                                                                   >  4:111336/1‑141 (MQ=255)
                                                         gCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACa                                                                                           <  6:129634/147‑1 (MQ=255)
                                                          cacaTAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGaa                                                                                        <  5:202921/149‑1 (MQ=255)
                                                           acaTAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGaaa                                                                                       >  2:149384/1‑149 (MQ=255)
                                                                  cAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGgcgcg                                                                                >  8:63426/1‑149 (MQ=255)
                                                                   aaCTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGgcgcgc                                                                               <  6:102912/149‑1 (MQ=255)
                                                                        ggTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGcc                                                                           <  7:63426/148‑1 (MQ=255)
                                                                        ggTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGcc                                                                           <  4:143299/148‑1 (MQ=255)
                                                                             cGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATtga                                                                     <  7:21380/149‑1 (MQ=255)
                                                                                     aTGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGc                                                              >  1:180050/1‑148 (MQ=255)
                                                                                      tGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGTTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCaa                                                            <  3:270761/149‑1 (MQ=255)
                                                                                                cATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGc                                                   >  5:286674/1‑148 (MQ=255)
                                                                                                       aCCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTgcg                                           >  2:114479/1‑149 (MQ=255)
                                                                                                                aGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCtt                                  <  6:286674/149‑1 (MQ=255)
                                                                                                                aGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCtt                                  <  2:180050/149‑1 (MQ=255)
                                                                                                                 gcgcgcTTTATTGCATCATCAATCTGCTAACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTAATCTTACGAAGGCCGCCGGGTAACATAAACGGCGCGCTGCCGATTGACTGAAGAAAACGCTACGCAATATGCGCCAATTATTg                                 >  7:190666/1‑149 (MQ=255)
                                                                                                                  cgcgcTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTgg                                >  2:280474/1‑149 (MQ=255)
                                                                                                                         tATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCt                          <  2:169843/148‑1 (MQ=255)
                                                                                                                               atcatcAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATCCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGATCCGCAATCTGCGCCAATTCTTGGCTATCTTTAAccc                   >  3:205210/1‑149 (MQ=255)
                                                                                                                                tcatcaATCTGCTCACGCTGGGTGAGCAGGGCGCACCCAATGATCATGGTCATCATCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAAccct                  <  3:192496/149‑2 (MQ=255)
                                                                                                                                    caATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAg               >  4:15906/1‑148 (MQ=255)
                                                                                                                                     aaTCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGc              >  3:162519/1‑148 (MQ=255)
                                                                                                                                     aaTCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCACCAATTCTTGGCTATCTTTAACCAGAAGc              >  7:209627/1‑148 (MQ=255)
                                                                                                                                      cccTGCTCACCCAGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGc              >  8:26989/3‑147 (MQ=255)
                                                                                                                                       ccTGCTCACCCAGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTgg                                <  5:136470/127‑1 (MQ=255)
                                                                                                                                       ccTGCTCACCCAGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTgg                                >  6:136470/2‑128 (MQ=255)
                                                                                                                                         tGCTCACCCAGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGc         >  2:170277/1‑149 (MQ=255)
                                                                                                                                           ctctCCCTGGGTTAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGTGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGGAATCTGCGGCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCt        <  4:205210/148‑1 (MQ=255)
                                                                                                                                            tCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCTAc      >  8:211875/1‑149 (MQ=255)
                                                                                                                                             catccTGTGTGAGCAGGTAGCACTCTATGCTAATTGTCATCTTCCGAGGGCCGACGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCTCCAATTCTTGGCTATCTTTAACCTGTAGCAAGGCTAc      <  8:209627/145‑1 (MQ=255)
                                                                                                                                               cccTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCTACGaa   >  5:230929/1‑149 (MQ=255)
                                                                                                                                                ccTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCTACGAAt  <  7:211875/149‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                  
GAATGTGATGCGTACCCTCCCGGATCCGGAGATCTTAACTTCCTCAGGATAACGCTGGCACATAGACAACTTGGTCACGTCCACCATGTTTGGCCGCATAGAGACCGCCGTCAGCGCGCTTTATTGCATCATCAATCTGCTCACCCTGGGTGAGCAGGGCGCACCCAATGCTCATGGTCATCTTCCGAGGGCCGCCGGGTAACAGAAACGGCGCGCTGCCGATTGACTGACGCAAGCGCTCCGCAATCTGCGCCAATTCTTGGCTATCTTTAACCCGTAGCAAGGCTACGAAT  >  NC_002947/2852251‑2852543

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: ‑