Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,529,049 C→T 7.2% P217S (CCG→TCG)  PP_4017 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,529,0490CT 7.2% 162.6 / 2.4 55P217S (CCG→TCG) PP_4017hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (24/27);  new base T (2/2);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01

CACGCCGACCTGCGTATCCTGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGCCTCAAGGCG  >  NC_002947/4528902‑4529192
                                                                                                                                                   |                                                                                                                                               
cACGCCGACCTGCGTATCCTGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCAcc                                                                                                                                                >  1:114752/1‑149 (MQ=255)
    ccGACCTGCGTATCCTGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAgc                                                                                                                                            >  1:78839/1‑149 (MQ=255)
          tGCGTATCCTGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCAACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGcc                                                                                                                                      <  6:125655/149‑1 (MQ=255)
                   tGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTg                                                                                                                             >  1:109162/1‑149 (MQ=255)
                     gCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGa                                                                                                                            <  7:25191/148‑1 (MQ=255)
                     gCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGa                                                                                                                            <  2:78839/148‑1 (MQ=255)
                       cGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGAccc                                                                                                                         <  5:12978/149‑1 (MQ=255)
                           ttCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACtt                                                                                                                     <  3:225438/149‑1 (MQ=255)
                              gAGCAGAGCGGCGAGTGGACCCTGGAGCCCAGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCATCGAGCGCTGCCGAGGTGCTGACCCACTTCAc                                                                                                                  >  1:305337/1‑149 (MQ=255)
                              gAGCAGAGCGGCGAGTGGACCCTGGAGCCCAGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCATCGAGCGCTGCCGAGGTGCTGACCCACTTCAc                                                                                                                  >  1:310231/1‑149 (MQ=255)
                                  agagCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTACCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGAc                                                                                                              <  2:76141/149‑1 (MQ=255)
                                    agCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAg                                                                                                                                   >  7:277207/1‑126 (MQ=255)
                                    agCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAg                                                                                                                                   <  8:277207/126‑1 (MQ=255)
                                       ggcgAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGAcc                                                                                                                          >  1:141134/1‑132 (MQ=255)
                                       ggcgAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGAcc                                                                                                                          <  2:141134/132‑1 (MQ=255)
                                             tGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGc                                                                                                     >  7:45503/1‑147 (MQ=255)
                                                  ccTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGa                                                                                                                                    >  2:208492/1‑111 (MQ=255)
                                                  ccTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGa                                                                                                                                    <  1:208492/111‑1 (MQ=255)
                                                        gCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGa                                                                                                                            >  6:252348/1‑113 (MQ=255)
                                                        gCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGa                                                                                                                            <  5:252348/113‑1 (MQ=255)
                                                           cGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCcgac                                                                                      >  5:96313/1‑148 (MQ=255)
                                                               ttcttGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGGCGTCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAaga                                                                                 <  1:85434/145‑1 (MQ=255)
                                                                   tGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCATCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAgcgc                                                                             <  2:310231/149‑1 (MQ=255)
                                                                   tGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCATCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAgcgc                                                                             <  2:305337/149‑1 (MQ=255)
                                                                    gCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACtt                                                                                                                     <  1:134391/108‑1 (MQ=255)
                                                                    gCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACtt                                                                                                                     >  2:134391/1‑108 (MQ=255)
                                                                    gCTCTACCTGCCACCGCGCCTCGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCGGACCCAATACACCGACTTCCTCGGCCAGTTCCTGCCCGACGAaga                                                                                 >  2:85434/1‑144 (MQ=255)
                                                                        tACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAg                                                                        >  3:46151/1‑149 (MQ=255)
                                                                         aCCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGc                                                                       >  7:260909/1‑149 (MQ=255)
                                                                               cACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgcc                                                                 <  1:148643/149‑1 (MQ=255)
                                                                                cccGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgccg                                                                >  4:52961/2‑149 (MQ=255)
                                                                                aCCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgccg                                                                <  2:109162/149‑1 (MQ=255)
                                                                                 ccGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgccga                                                               >  1:236653/1‑149 (MQ=255)
                                                                                       cTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCgacgccgacgcc                                                           >  8:181006/1‑147 (MQ=255)
                                                                                            ccccTACGGCGTGGCCGTGGATGACTGCCTGCCCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGCCGCCCAGCCgg                                                    >  1:39940/4‑149 (MQ=255)
                                                                                            ccACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCgg                                                    <  7:181006/149‑1 (MQ=255)
                                                                                                    gCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGccc                                                                                         <  6:9037/104‑1 (MQ=255)
                                                                                                    gCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGccc                                                                                         >  5:9037/1‑104 (MQ=255)
                                                                                                      gTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgac                                                                    <  5:192577/123‑1 (MQ=255)
                                                                                                      gTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgac                                                                    >  6:192577/1‑123 (MQ=255)
                                                                                                      gTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGAccc                                          <  3:52961/149‑1 (MQ=255)
                                                                                                        ggCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGc                                        >  7:68315/1‑149 (MQ=255)
                                                                                                                aTGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATc                                <  8:68315/149‑1 (MQ=255)
                                                                                                                   aCTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgcc                                                                 <  4:17781/113‑1 (MQ=255)
                                                                                                                   aCTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGcgacgcc                                                                 >  3:17781/1‑113 (MQ=255)
                                                                                                                        cTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGa                        >  8:148743/1‑149 (MQ=255)
                                                                                                                         ggACCTACGCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGAt                       <  2:39940/148‑1 (MQ=255)
                                                                                                                             cTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGccc                   <  8:132762/149‑1 (MQ=255)
                                                                                                                                cTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTc                 >  8:271596/1‑148 (MQ=255)
                                                                                                                                  cggtcggCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCgacgccgacgcc                                                           <  6:315127/104‑1 (MQ=255)
                                                                                                                                  cggtcggCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCgacgccgacgcc                                                           >  5:315127/1‑104 (MQ=255)
                                                                                                                                    gtcggCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCTGTTCCTGCCCGACGAAGAGCGCTACAGCGACTCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCg            <  2:234501/149‑1 (MQ=255)
                                                                                                                                     tcggCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCCGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGc           <  2:114752/149‑1 (MQ=255)
                                                                                                                                      cggCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGcc          <  4:46151/149‑1 (MQ=255)
                                                                                                                                        gCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGCCTc        <  6:90277/149‑1 (MQ=255)
                                                                                                                                              gcgcACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGCCTCAAGgcg  >  3:77420/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
CACGCCGACCTGCGTATCCTGGCCGAGTTCGAGCAGAGCGGCGAGTGGACCCTGGAGCCCGGCGACATGCTCTACCTGCCACCGCGCCTGGCCCACTACGGCGTGGCCGTGGATGACTGCCTGACCTACTCGGTCGGCTTCCGCGCACCGAGCGCTGCCGAGGTGCTGACCCACTTCACCGACTTCCTCGGCCAGTTCCTGCCCGACGAAGAGCGCTACAGCGACGCCGACGCCCAGCCGGTCAGCGACCCGCACCAGATCCAGCACGATGCCCTCGACCGCCTCAAGGCG  >  NC_002947/4528902‑4529192

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: ‑