Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,980,180 G→C 9.1% Q275H (CAG→CAC) ‡ PP_5242 → GAF domain‑containing sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,980,1800GC 9.1% 157.7 / 6.3 55Q275H (CAG→CAC) ‡PP_5242GAF domain‑containing sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (24/26);  new base C (3/2);  total (27/28)
Fisher's exact test for biased strand distribution p-value = 6.69e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.41e-01

TGCTGGTGTGCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAGCA  >  NC_002947/5980033‑5980325
                                                                                                                                                   |                                                                                                                                                 
tGCTGGTGTGCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGc                                                                                                                                                  >  8:8819/1‑149 (MQ=255)
   tGGTGTGCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCgg                                                                                                                                                >  5:290203/1‑148 (MQ=255)
       gtgCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCCCACTGCCGCTGGCAGt                                                                                                                                            >  5:175898/1‑148 (MQ=255)
        tgCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTgg                                                                                                                                          <  4:85813/149‑1 (MQ=255)
        tgCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTgg                                                                                                                                          <  7:251886/149‑1 (MQ=255)
          cAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCCCACTGCCGCTGGCAGTgag                                                                                                                                         <  1:246898/148‑3 (MQ=255)
           aGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGgcc                                                                                                                                       >  1:124588/1‑149 (MQ=255)
            gCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCCCACTGCCGCTGGCAGTGAgcca                                                                                                                                      <  6:175898/149‑2 (MQ=255)
              cgcgGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGgccgcc                                                                                                                                    >  4:158871/1‑149 (MQ=255)
                     ggcCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGCCGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTgg                                                                                                                                          >  1:6166/1‑136 (MQ=255)
                     ggcCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTgg                                                                                                                                          <  2:6166/136‑1 (MQ=255)
                          gCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACGAAACCATg                                                                                                                        <  6:215540/149‑1 (MQ=255)
                                  gACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCtt                                                                                                                >  6:40783/1‑149 (MQ=255)
                                  gACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCtt                                                                                                                >  3:210633/1‑149 (MQ=255)
                                     aGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCAc                                                                                                             <  1:25386/149‑1 (MQ=255)
                                       cAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCAccc                                                                                                           <  6:191220/149‑1 (MQ=255)
                                                    tCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGa                                                                                              >  3:25125/1‑149 (MQ=255)
                                                       cTCAGCCTGGTCCTGGCAAAGGCCTTGACCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGAccc                                                                                           >  1:7730/1‑149 (MQ=255)
                                                          aGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCgg                                                                                         <  7:8819/148‑1 (MQ=255)
                                                           gCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTa                                                                                       <  6:219452/149‑1 (MQ=255)
                                                                 tCCTGGCACAGGCCGTGGCCAAAGATCCGGACGGCCGCGACCACCGCGCGCGCGCCTTTGCCGTGGACTTGGCTCACTGCCAGCCGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGccc                                                                                 <  8:219755/149‑1 (MQ=255)
                                                                    tGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGc                                                                              >  8:104805/1‑149 (MQ=255)
                                                                       cAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCAc                                                                           >  3:213831/1‑149 (MQ=255)
                                                                         aaGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGGCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCAcgc                                                                         >  3:192259/1‑149 (MQ=255)
                                                                              cTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGcc                                                                    >  8:168272/1‑149 (MQ=255)
                                                                                    cgcgtcgccggccgCCCGCTACCAGAGCGCGCGAGCCTGTGCAGGGGACTTGGCGCACTTCCAGCGGCAGTGGGCCGGCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTg                                                              <  8:123152/143‑1 (MQ=255)
                                                                                     aaaGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTgg                                                             <  5:40783/149‑1 (MQ=255)
                                                                                                 gCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCCCGCCTGATTGGCCGCCGCGCCGa                                                 >  8:142252/1‑149 (MQ=255)
                                                                                                         ccAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGGCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAgg                                         <  4:192259/149‑1 (MQ=255)
                                                                                                         ccAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCAcgcgc                                                                       <  4:115896/119‑1 (MQ=255)
                                                                                                         ccAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCAcgcgc                                                                       >  3:115896/1‑119 (MQ=255)
                                                                                                               cgcgcgcgcCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCa                                   >  4:34542/1‑149 (MQ=255)
                                                                                                               cgcgcgcgcCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCa                                   <  4:25125/149‑1 (MQ=255)
                                                                                                                  gcgcgcCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCAccc                                <  4:213831/149‑1 (MQ=255)
                                                                                                                     cgcCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCctgc                             <  7:104805/149‑1 (MQ=255)
                                                                                                                              aGTTGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAgg                    <  3:158871/149‑1 (MQ=255)
                                                                                                                                  gACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCtt                <  7:42361/149‑1 (MQ=255)
                                                                                                                                   aCTTGGCTCACTGCCAGCGGCAGTGGGCCGCGCACATAAGCATGGCACCCTGCACCGGAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGGGGCTGTTTGGCCGCGGCGGCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTg               <  7:142252/149‑1 (MQ=255)
                                                                                                                                     ttGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGaa             >  5:71226/1‑149 (MQ=255)
                                                                                                                                     ttGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGaa             >  1:250859/1‑149 (MQ=255)
                                                                                                                                       ggCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACgcgcgc                                                                     <  2:76171/91‑1 (MQ=255)
                                                                                                                                       ggCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACgcgcgc                                                                     >  1:76171/1‑91 (MQ=255)
                                                                                                                                       ggCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAAt            >  2:147537/1‑148 (MQ=255)
                                                                                                                                       ggCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAAt            <  1:147537/148‑1 (MQ=255)
                                                                                                                                        gCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATcg          <  3:34542/149‑1 (MQ=255)
                                                                                                                                        gCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATcg          <  7:168272/149‑1 (MQ=255)
                                                                                                                                         cccACTGCCGCTGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATcgc         >  4:114564/3‑149 (MQ=255)
                                                                                                                                          tCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATcgc         >  6:90959/1‑148 (MQ=255)
                                                                                                                                          ccACTGCCGCTGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATcgc         >  6:211021/2‑148 (MQ=255)
                                                                                                                                             cTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATa     <  6:290203/149‑1 (MQ=255)
                                                                                                                                             cTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATa     <  4:291046/149‑1 (MQ=255)
                                                                                                                                              tGCCAGCGGCAGTGGACCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAg    >  8:264438/1‑149 (MQ=255)
                                                                                                                                                ccAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAGc   >  1:294617/1‑148 (MQ=255)
                                                                                                                                                ccAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAGc   >  5:238601/1‑148 (MQ=255)
                                                                                                                                                ccAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAGCa  <  2:124588/149‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                                 
TGCTGGTGTGCAGCCGCGGGCGGCCAGCGAAGCGGACAGCAAGGTGCCGCACTCCCTCAGCCTGGTCCTGGCAAAGGCCTTGGCCAAAGAGCCGGACGCCCGCTACCAGAGCGCGCGCGCCTTTGCAGTGGACTTGGCTCACTGCCAGCGGCAGTGGGCCGCCCACAAAACCATGGCACCCTTCACCCCAGGCTGCGCCGACCCGGTAGCGCCCGGCCACGCGCGCCTGTTTGGCCGCGGCGCCGAGCAAAAGGCTATCACCCTGCTGCTCAAGGCCTTGAATCGCGATAGCA  >  NC_002947/5980033‑5980325

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: ‑