Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,333,664 C→A 8.0% L32M (CTG→ATG) ‡ PP_4695 → two‑component system sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,333,6640CA 8.0% 158.1 / 3.9 50L32M (CTG→ATG) ‡PP_4695two‑component system sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base C (22/24);  new base A (2/2);  total (24/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

CTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGC  >  NC_002947/5333519‑5333810
                                                                                                                                                 |                                                                                                                                                   
cTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGa                                                                                                                                                  >  1:30201/1‑149 (MQ=255)
 tGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGAt                                                                                                                                                 >  8:38216/1‑149 (MQ=255)
   ctctGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGCGCGCGGGc                                                                                                                                                     >  8:99163/1‑143 (MQ=255)
   ctctGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGc                                                                                                                                                     <  7:99163/143‑1 (MQ=255)
   ctctGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGACTGGCCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATcc                                                                                                                                               >  4:36398/1‑149 (MQ=255)
      tGGCTGATCCTGATGGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATccc                                                                                                                                              <  5:199858/147‑1 (MQ=255)
        gCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCTACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGt                                                                                                                                          <  3:96400/149‑1 (MQ=255)
        gCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCcgc                                                                                                                                            <  3:222959/147‑1 (MQ=255)
         ctgatcctgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATGCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTTGCCTGGATCAGCGAGCGCGGGATCAGCCcgcgct                                                                                                                                         <  4:248505/149‑3 (MQ=255)
            atcctgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGa                                                                                                                                      <  2:30201/149‑1 (MQ=255)
                  atcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCAtt                                                                                                                                 <  2:315860/148‑1 (MQ=255)
                        gtcACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGGCCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGccac                                                                                                                           <  3:36398/148‑1 (MQ=255)
                           aCCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATc                                                                                                                                                >  8:186927/1‑124 (MQ=255)
                           aCCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATc                                                                                                                                                <  7:186927/124‑1 (MQ=255)
                             cTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACtt                                                                                                                     <  3:325132/149‑1 (MQ=255)
                             cTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACt                                                                                                                      >  7:203164/1‑148 (MQ=255)
                             cTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACt                                                                                                                      >  2:343288/1‑148 (MQ=255)
                                 aTCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTAcc                                                                                                                  <  7:38216/148‑1 (MQ=255)
                                        agagCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCt                                                                                                          <  1:343288/149‑1 (MQ=255)
                                            ccAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCg                                                                                                     >  1:85228/1‑149 (MQ=255)
                                               aCGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTa                                                                                                                >  8:147624/1‑136 (MQ=255)
                                               aCGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTa                                                                                                                <  7:147624/136‑1 (MQ=255)
                                                     tGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTc                                                                                            <  6:207210/149‑1 (MQ=255)
                                                         gATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTgg                                                                                                 <  6:151516/140‑1 (MQ=255)
                                                         gATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTgg                                                                                                 >  5:151516/1‑140 (MQ=255)
                                                         gATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACg                                                                                        >  6:85129/1‑149 (MQ=255)
                                                          aTGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGc                                                                                       >  7:102149/1‑149 (MQ=255)
                                                             aGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCa                                                                                     <  8:185634/148‑1 (MQ=255)
                                                                tttAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGc                                                                                 >  4:137831/1‑149 (MQ=255)
                                                                      cTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGc                                                                                               >  7:41844/1‑129 (MQ=255)
                                                                      cTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGc                                                                                               <  8:41844/129‑1 (MQ=255)
                                                                              gatgatCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTAt                                                                    <  2:193516/148‑1 (MQ=255)
                                                                              gatgatCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTAt                                                                    >  1:193516/1‑148 (MQ=255)
                                                                               atgatCCTGATGAGGGGCGGGTACCTCTTGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGGGGGCTGATGCCGCTTTCGATCTTTCGCCTCCCACTTACCTACACCCTG‑TCGCTGGGCGTCTAGGCGTGTGCCTGGGCCTTGTATgg                                                                  <  4:108082/149‑1 (MQ=255)
                                                                                 gatCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCt                                                                >  8:300157/1‑149 (MQ=255)
                                                                                     cTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGACTACGCCACTGACTGGGCCTTCTATGGCTCGGt                                                            >  2:264826/1‑149 (MQ=255)
                                                                                      tGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGtt                                                           >  5:81708/1‑149 (MQ=255)
                                                                                        aTCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTtg                                                          <  8:102149/148‑1 (MQ=255)
                                                                                               ccGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTtggcctggcc                                                  >  1:259351/1‑149 (MQ=255)
                                                                                                       cTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTtggc                                                        <  4:20875/135‑1 (MQ=255)
                                                                                                       cTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTtggc                                                        >  3:20875/1‑135 (MQ=255)
                                                                                                                cTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGtacggctacgg                                 <  5:85129/149‑1 (MQ=255)
                                                                                                                   ttCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGtacggctacggc                                <  2:85228/147‑1 (MQ=255)
                                                                                                                                ggATCAGCCCGCGCTCGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTAc                 >  2:333154/1‑149 (MQ=255)
                                                                                                                                     agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg            >  6:87845/1‑149 (MQ=255)
                                                                                                                                     agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgg             <  3:137831/148‑1 (MQ=255)
                                                                                                                                      tcgaacgCGGGATCAGCCCGCGCTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgggg           <  1:41801/148‑1 (MQ=255)
                                                                                                                                      tcgaacgCGGGATCAGCCCGCGCTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgggg           >  2:41801/2‑149 (MQ=255)
                                                                                                                                      gcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgggg           <  2:259351/149‑1 (MQ=255)
                                                                                                                                        gaacgcgGGATCAGCCCGCGCTCGATCATTCGCCACCCACTTACCTACACCCTGAGCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCAATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggggg          >  1:281197/4‑149 (MQ=255)
                                                                                                                                              gggCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTgg   >  7:146306/1‑149 (MQ=255)
                                                                                                                                               ggCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGgc  <  8:203164/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                   
CTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTG‑TCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGC  >  NC_002947/5333519‑5333810

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑