Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,840,665 G→A 7.6% A206V (GCG→GTG)  PP_5119 ← TetR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,840,6650GA 7.6% 153.9 / 2.1 55A206V (GCG→GTG) PP_5119TetR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (23/26);  new base A (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 = 4.54e-01

GAGCCCAGACGCTCGGCCAACTGCTGCGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCATGATGTCA  >  NC_002947/5840528‑5840806
                                                                                                                                         |                                                                                                                                             
gAGCCCAGACGCTCGGCCAACTGCTGCGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCa                                                                                                                                    <  2:44238/149‑1 (MQ=255)
        aCGCTCGGCCAACTGCTGCGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGc                                                                                                                            <  5:355863/149‑1 (MQ=255)
                       ctgcGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGa                                                                                                              >  4:14872/1‑148 (MQ=255)
                        tgcGGGGTGATCAATTGCGGAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGaaa                                                                                                            <  4:342356/149‑1 (MQ=255)
                          cGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAAcc                                                                                                          <  6:122540/149‑1 (MQ=255)
                             ggTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAg                                                                                                       <  2:166182/149‑1 (MQ=255)
                                 aTCAATTGCGAAAGGGGCATGACAATCTCCTGATCGCTGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACAAGGAATTCCTGAAACAGCTCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTc                                                                                                    >  3:289420/1‑148 (MQ=255)
                                     aTTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCgg                                                                                                                    >  8:315541/1‑128 (MQ=255)
                                     aTTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCgg                                                                                                                    <  7:315541/128‑1 (MQ=255)
                                                ggCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAg                                                                                                       <  8:182152/130‑1 (MQ=255)
                                                ggCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAg                                                                                                       >  7:182152/1‑130 (MQ=255)
                                                   aTGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTccagcac                                                                                              >  6:35647/1‑136 (MQ=255)
                                                   aTGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTccagcac                                                                                              <  5:35647/136‑1 (MQ=255)
                                                        aaTCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCACTTCTACGGCAGTACGGGCATTGTCGGTGa                                                                                                                 <  5:37523/112‑1 (MQ=255)
                                                        aaTCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCACTTCTACGGCAGTACGGGCATTGTCGGTGa                                                                                                                 >  6:42791/1‑112 (MQ=255)
                                                        aaTCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCACTTCTACGGCAGTACGGGCATTGTCGGTGa                                                                                                                 >  6:37523/1‑112 (MQ=255)
                                                        aaTCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCACTTCTACGGCAGTACGGGCATTGTCGGTGa                                                                                                                 <  5:42791/112‑1 (MQ=255)
                                                            tcCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCagcaccagcacc                                                                                       <  5:359285/134‑1 (MQ=255)
                                                            tcCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCgcgc                                                                        >  1:310693/1‑149 (MQ=255)
                                                            tcCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCAagcaccagcacc                                                                                       >  6:359285/1‑134 (MQ=255)
                                                                     aTGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACg                                                                                                                               >  7:236983/1‑85 (MQ=255)
                                                                     aTGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACg                                                                                                                               <  8:236983/85‑1 (MQ=255)
                                                                      tGGCACAAGAGCCCTGGGCTATAGCTCCAGGGCCTGGTTGAACGTTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAg                                                                  <  3:110390/145‑1 (MQ=255)
                                                                           caAGAGCCCTCTGCTAGAGCTCCAGGGCCTGGTTGAACCGCACATGCAATTCCTGACACAGCCCTTCTTCGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCTGCACCTGATAGACGCCGCGCGTGAAGTGTTCTTCa                                                         <  6:348305/149‑1 (MQ=255)
                                                                            aaGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCAc                                                        <  3:14872/149‑1 (MQ=255)
                                                                                  ccTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAgg                                                                 >  7:271277/1‑134 (MQ=255)
                                                                                  ccTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAgg                                                                 <  8:271277/134‑1 (MQ=255)
                                                                                      ggCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTgcgc                                              <  6:77817/149‑1 (MQ=255)
                                                                                            agCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATg                                        >  5:290229/1‑149 (MQ=255)
                                                                                            agCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCCGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGAGCGCAGAATg                                        >  3:3786/1‑149 (MQ=255)
                                                                                                ccAGGCCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCa                                    >  8:148373/1‑149 (MQ=255)
                                                                                                       cTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCgtgg                             >  6:145426/1‑149 (MQ=255)
                                                                                                              aaCGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGGGCTga                       <  6:145816/148‑1 (MQ=255)
                                                                                                               aCGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCTGCGCTTGAAGGCTGCTGCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTgag                      >  4:248567/1‑148 (MQ=255)
                                                                                                               aCGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGt                                       <  3:342204/131‑1 (MQ=255)
                                                                                                               aCGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGt                                       >  4:342204/1‑131 (MQ=255)
                                                                                                                cGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGaa                                                                   <  8:185490/102‑1 (MQ=255)
                                                                                                                cGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGaa                                                                   >  7:185490/1‑102 (MQ=255)
                                                                                                                 ggTACATGGATTTCCTGAGAAAGTGCTTCTACTGCAGTACGGTCATTGGCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATATACGCCGCGCTTGCAGGATTCTTCACCCAAGTGCGCAGAATGTTCACGCGTTGTGCTGAGaaa                   <  4:289420/149‑1 (MQ=255)
                                                                                                                      aTGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGt                                                  <  4:240088/113‑1 (MQ=255)
                                                                                                                      aTGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGt                                                  >  3:240088/1‑113 (MQ=255)
                                                                                                                      aTGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGAAGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTa              >  1:54971/1‑149 (MQ=255)
                                                                                                                         gAATTCCTGAGACAGCGGTTCTACGGCAGTACGGGCTTTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTAgcc           <  4:3786/149‑1 (MQ=255)
                                                                                                                         gAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTAcc            <  5:145426/148‑1 (MQ=255)
                                                                                                                          aaTTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCa          <  2:54971/149‑1 (MQ=255)
                                                                                                                          aaTTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCa          >  3:303659/1‑149 (MQ=255)
                                                                                                                             tCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCatga       >  4:329072/1‑149 (MQ=255)
                                                                                                                              ccTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGa                                                                                    >  1:73083/1‑71 (MQ=255)
                                                                                                                              ccTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGa                                                                                    <  2:73083/71‑1 (MQ=255)
                                                                                                                               cTGACACAGCGCTTCTACGGCAGTACGCGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCatgatg     <  2:310693/149‑1 (MQ=255)
                                                                                                                               cTGACACAGCGCTTCTACGCCAGTACGGGCATTGTCGGTGACGAAACCGAGCAACAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTATTAACCCAAGTGCGCAGAATCATCACGCATTCTACTGACAAAACGTACCCatgatg     >  5:82344/1‑149 (MQ=255)
                                                                                                                                tGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCt                                                                                                     >  2:186074/1‑52 (MQ=255)
                                                                                                                                tGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCt                                                                                                     <  1:186074/52‑1 (MQ=255)
                                                                                                                                tGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCATGATGt    >  8:1132/1‑149 (MQ=255)
                                                                                                                                   cacaGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCATGATGTCa  <  7:148373/148‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                             
GAGCCCAGACGCTCGGCCAACTGCTGCGGGGTGATCAATTGCGCAAGGGGCATGACAATCTCCTGATCGATGGCACAAGAGCCCTGGGCTAGAGCTCCAGGGCCTGGTTGAACGGTACATGGAATTCCTGACACAGCGCTTCTACGGCAGTACGGGCATTGTCGGTGACGAAACCGAGCTCCAGCACCAGCACCTGATAGACGCCGCGCTTGAAGGCTTCTTCACCCAAGTGCGCAGAATGTTCACGCGTGGTGCTGAGAAAACGTACCCATGATGTCA  >  NC_002947/5840528‑5840806

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: ‑