Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,179,341 G→A 100% L445L (CTG→TTG)  PP_2790 ← sigma‑54 dependent sensory box protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,179,3410GA100.0% 176.1 / NA 52L445L (CTG→TTG) PP_2790sigma‑54 dependent sensory box protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/28);  total (24/28)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GGAAATACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAGGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAGC  >  NC_002947/3179197‑3179486
                                                                                                                                                |                                                                                                                                                 
ggAAATACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCgt                                                                                                                                               >  7:39636/1‑149 (MQ=255)
  aaaTACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAACACTCGCAGCAAGCgtgt                                                                                                                                             <  3:272358/149‑1 (MQ=255)
   aaTACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGtt                                                                                                                                            <  1:200180/149‑1 (MQ=255)
   aaTACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGtt                                                                                                                                            <  1:39719/149‑1 (MQ=255)
         ggTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGc                                                                                                                                      <  3:30593/149‑1 (MQ=255)
           tCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGa                                                                                                                                    >  2:98289/1‑149 (MQ=255)
              gTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGacac                                                                                                                                 >  3:154105/1‑149 (MQ=255)
                         gCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCg                                                                                                                       <  1:194358/148‑1 (MQ=255)
                             tCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAt                                                                                                                  <  2:94109/149‑1 (MQ=255)
                              cGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAtc                                                                                                                 >  6:224226/1‑149 (MQ=255)
                               gTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAt                                                                                                                  <  3:184281/147‑1 (MQ=255)
                                tCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGa                                                                                                                   <  1:82300/145‑1 (MQ=255)
                                tCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGa                                                                                                                   >  2:82300/1‑145 (MQ=255)
                                tCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAtctc                                                                                                               <  1:98289/149‑1 (MQ=255)
                                tCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAtctc                                                                                                               >  1:338305/1‑149 (MQ=255)
                                tCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGAtctc                                                                                                               >  3:180843/1‑149 (MQ=255)
                                  cATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCtcgt                                                                                                             >  4:123217/1‑149 (MQ=255)
                                             gcAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGc                                                                                                  <  3:123217/149‑1 (MQ=255)
                                                 gTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGc                                                                                                                                                 >  8:140457/1‑98 (MQ=255)
                                                    cTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCcgc                                                                                           >  5:302168/1‑149 (MQ=255)
                                                       gtgggtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGt                                                                                                                         <  5:127039/116‑1 (MQ=255)
                                                       gtgggtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGt                                                                                                                         >  6:127039/1‑116 (MQ=255)
                                                        tgggtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGgt                                                                                        <  2:338305/148‑1 (MQ=255)
                                                           gtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGgt                                                                                        >  6:57591/1‑145 (MQ=255)
                                                           gtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGgt                                                                                        <  5:57591/145‑1 (MQ=255)
                                                                 gcAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGaa                                                                                                      <  7:212976/125‑1 (MQ=255)
                                                                 gcAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGaa                                                                                                      >  8:212976/1‑125 (MQ=255)
                                                                    atgatgCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGaa                                                                           <  6:302168/149‑1 (MQ=255)
                                                                          cgcACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGc                                                                      <  8:39636/148‑1 (MQ=255)
                                                                                  gATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGc                                                             >  1:243866/1‑149 (MQ=255)
                                                                                          tcggttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTg                                                     >  6:35872/1‑149 (MQ=255)
                                                                                            ggttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTgcg                                                   >  7:78144/1‑149 (MQ=255)
                                                                                             gttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTgcgc                                                  >  5:66102/1‑149 (MQ=255)
                                                                                              ttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTgcgc                                                  >  1:19057/1‑148 (MQ=255)
                                                                                                     ctgcCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGc                                           <  2:243866/148‑1 (MQ=255)
                                                                                                        cccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGa                                        <  4:180843/148‑1 (MQ=255)
                                                                                                            ggCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGgcg                                   <  5:224226/149‑1 (MQ=255)
                                                                                                             gcgcAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGgcgc                                  <  5:35872/149‑1 (MQ=255)
                                                                                                               gcAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGaa                                                                           <  1:77326/106‑1 (MQ=255)
                                                                                                               gcAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGaa                                                                           >  2:77326/1‑106 (MQ=255)
                                                                                                                  ggACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCtt                                                                               >  8:244756/1‑99 (MQ=255)
                                                                                                                  ggACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCtt                                                                               <  7:244756/99‑1 (MQ=255)
                                                                                                                  ggACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTcc                             <  8:78144/149‑1 (MQ=255)
                                                                                                                      ttCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCt                                                                    <  5:21029/106‑1 (MQ=255)
                                                                                                                      ttCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCt                                                                    >  6:21029/1‑106 (MQ=255)
                                                                                                                           gcTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGcc                     >  5:283434/1‑148 (MQ=255)
                                                                                                                             tctTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGaa                  >  1:16942/1‑149 (MQ=255)
                                                                                                                                  cagcaCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAAtt             <  2:16942/149‑1 (MQ=255)
                                                                                                                                    gcaCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGc                                              >  7:58487/1‑114 (MQ=255)
                                                                                                                                    gcaCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGc                                              <  8:58487/114‑1 (MQ=255)
                                                                                                                                    gcaCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCa           <  6:283434/149‑1 (MQ=255)
                                                                                                                                       cgcgCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACtt        <  6:66102/149‑1 (MQ=255)
                                                                                                                                           cagcaaGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCa    <  4:154105/149‑1 (MQ=255)
                                                                                                                                              cagGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAGc  >  2:6525/1‑148 (MQ=255)
                                                                                                                                                |                                                                                                                                                 
GGAAATACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAGGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAGC  >  NC_002947/3179197‑3179486

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