Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,554,375 C→T 8.1% R174H (CGC→CAC)  PP_4886 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,554,3750CT 8.1% 137.4 / 2.5 49R174H (CGC→CAC) PP_4886hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (23/22);  new base T (2/2);  total (25/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.08e-01

AGCACATCAAACTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCGGCAATGAT  >  NC_002947/5554237‑5554520
                                                                                                                                          |                                                                                                                                                  
aGCACATCAAACTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATcc                                                                                                                                          >  3:239435/1‑149 (MQ=255)
     aTCAAACTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCg                                                                                                                                     >  1:300280/1‑149 (MQ=255)
        aaaCTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTc                                                                                                                                                <  8:281918/135‑1 (MQ=255)
        aaaCTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTc                                                                                                                                                >  7:281918/1‑135 (MQ=255)
          aCTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACg                                                                                                                                <  2:201062/149‑1 (MQ=255)
                 ccGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTgccgc                                                                                                                         <  4:239435/149‑1 (MQ=255)
                              ttCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTc                                                                                                            <  2:300280/149‑1 (MQ=255)
                                    ggCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGc                                                                                                       <  7:54728/148‑1 (MQ=255)
                                     gCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGt                                                                                                     >  7:22929/1‑149 (MQ=255)
                                        tATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTc                                                                                                  <  8:22929/149‑1 (MQ=255)
                                         aTCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCt                                                                                                 >  1:315109/1‑149 (MQ=255)
                                               cTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAg                                                                                                                      <  1:40754/122‑1 (MQ=255)
                                               cTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAg                                                                                                                      >  2:40754/1‑122 (MQ=255)
                                                     cGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCATTTCTGCCGCgtg                                                                                         >  3:29129/1‑145 (MQ=255)
                                                     cGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACACATACTTCTTGTTGTTGATGTGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCcgc                                                                                            <  5:271331/142‑1 (MQ=255)
                                                     cGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACACATACTTCTTGTTGTTGATGTGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCcgc                                                                                            <  5:266449/142‑1 (MQ=255)
                                                     cGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACACATACTTCTTGTTGTTGATGTGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCcgc                                                                                            >  6:266449/1‑142 (MQ=255)
                                                     cGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACACATACTTCTTGTTGTTGATGTGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCcgc                                                                                            >  6:271331/1‑142 (MQ=255)
                                                         tCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGa                                                                                     <  4:22566/145‑1 (MQ=255)
                                                         tCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGa                                                                                     >  3:22566/1‑145 (MQ=255)
                                                           aTACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTc                                                                                >  5:295155/1‑148 (MQ=255)
                                                           aTACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTc                                                                                <  6:295155/148‑1 (MQ=255)
                                                           aTACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCt                                                                               >  4:301991/1‑149 (MQ=255)
                                                           aTACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCt                                                                               >  7:267879/1‑149 (MQ=255)
                                                              cGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCATTTCTGCCGCGTGTAGATTGTCTTg                                                                             <  4:29129/148‑1 (MQ=255)
                                                                       aTGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCg                                                                    >  3:45808/1‑148 (MQ=255)
                                                                        tGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCt                                                                               <  6:289084/136‑1 (MQ=255)
                                                                        tGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCt                                                                               >  5:289084/1‑136 (MQ=255)
                                                                                 aTGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTg                                                         >  3:139905/1‑149 (MQ=255)
                                                                                    aaGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCa                                                       <  8:267879/148‑1 (MQ=255)
                                                                                                    aCATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCAcc                                      >  2:318573/1‑149 (MQ=255)
                                                                                                                 tCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCATGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGgcgc                        >  1:188719/1‑149 (MQ=255)
                                                                                                                     gCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTg                    >  5:304360/1‑149 (MQ=255)
                                                                                                                     gCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTg                    <  3:45354/149‑1 (MQ=255)
                                                                                                                      cATACTTCTTGTTGTTGATGCGGTCCCATGCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   <  2:315109/149‑1 (MQ=255)
                                                                                                                      cATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   >  6:288468/1‑149 (MQ=255)
                                                                                                                      cATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   <  6:304360/149‑1 (MQ=255)
                                                                                                                      cATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCATGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   <  2:188719/149‑1 (MQ=255)
                                                                                                                        tACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGc                 <  1:318573/149‑1 (MQ=255)
                                                                                                                             cttGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAAt            >  1:3173/1‑149 (MQ=255)
                                                                                                                                 ttgttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCgg         >  2:340862/1‑148 (MQ=255)
                                                                                                                                    ttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCa                                                       <  8:35859/100‑1 (MQ=255)
                                                                                                                                    ttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCa                                                       >  7:35859/1‑100 (MQ=255)
                                                                                                                                    ttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   >  3:114007/1‑135 (MQ=255)
                                                                                                                                    ttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTgg                   <  4:114007/135‑1 (MQ=255)
                                                                                                                                    ttgATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCGGCAAt     <  5:288468/149‑1 (MQ=255)
                                                                                                                                       aTGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCGGCAATGAt  <  8:248948/149‑1 (MQ=255)
                                                                                                                                        tGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAGCCGCTGGCGCTTTGGGCGTAATCGGCaa      <  1:180488/145‑1 (MQ=255)
                                                                                                                                        tGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCCCCCGTAGTTAAGCTGAACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCGGCAAtaga  >  2:180488/1‑145 (MQ=255)
                                                                                                                                          |                                                                                                                                                  
AGCACATCAAACTTGGCCCGCTGATTCGCGTTCATGGGCGTATCGGCCTTCAGCGACTCATACGACTGCGCATGCGGATTAATGAAGCTGCGCGCCTCGGACATGGTAGTACCTCACGCATACTTCTTGTTGTTGATGCGGTCCCATCCGCCCGTGACGTTGCCGCCAGCGCTGCCGTCGAGGCGTTTCTGCCGCGTGTAGATTGTCTTGATGCGCCCGTAGTTCAGCTGCACGACTTCCACTGGCACCCCAG‑CGCTGGCGCTTTGGGCGTAATCGGCAATGAT  >  NC_002947/5554237‑5554520

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: ‑