Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	336,125	+T	coding (210/237 nt)	PP_0278 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	336,124	1	.	T	100.0%	180.0 / NA	53	D70V (GAT→GTT)	PP_0278	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (30/23);  total (30/23)

GTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGA  >  NC_002947/335976‑336263                                                                                                                                                       |                                                                                                                                            gTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGa                                                                                                                                              >  3:13295/1‑149 (MQ=255)         aTCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCtgt                                                                                                                                      >  5:110400/1‑149 (MQ=255)             cTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGa                                                                                                                                  >  4:312014/1‑149 (MQ=255)                 aTCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATg                                                                                                                              <  4:28491/149‑1 (MQ=255)                    tcCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGc                                                                                                                            >  3:336909/1‑148 (MQ=255)                     ccTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATg                                                                                                                              <  6:218976/145‑1 (MQ=255)                     ccTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATg                                                                                                                              >  5:218976/1‑145 (MQ=255)                          gcgTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGgcg                                                                                                                     >  4:238584/1‑149 (MQ=255)                           cgTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGgcgc                                                                                                                    <  8:38564/149‑1 (MQ=255)                                            ccGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATc                                                                                                      >  6:72109/1‑146 (MQ=255)                                             cGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCgaga                                                                                                  <  4:336909/149‑1 (MQ=255)                                                         cTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGt                                                                                       >  6:347525/1‑148 (MQ=255)                                                         cTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGt                                                                                       <  5:347525/148‑1 (MQ=255)                                                         cTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGt                                                                                       >  6:100210/1‑148 (MQ=255)                                                          tACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGt                                                                                       >  2:139077/1‑147 (MQ=255)                                                                    tctcGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAg                                                                           <  5:219440/149‑1 (MQ=255)                                                                     ctcGATCCTGACGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAgg                                                                          >  4:255193/1‑149 (MQ=255)                                                                        gATCCTGACGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCAt                                                                       <  3:255193/149‑1 (MQ=255)                                                                         aTCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCAtt                                                                      >  5:298078/1‑149 (MQ=255)                                                                             tGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGAcg                                                                  >  3:161759/1‑149 (MQ=255)                                                                                   gCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCa                                                            >  6:32600/1‑149 (MQ=255)                                                                                    cTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCggggag                                                           >  4:286775/1‑145 (MQ=255)                                                                                     tACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCAtt                                                          >  5:38677/1‑149 (MQ=255)                                                                                      aCATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCtgtg                                                                                                                                     <  2:50906/73‑1 (MQ=255)                                                                                      aCATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCtgtg                                                                                                                                     >  1:50906/1‑73 (MQ=255)                                                                                       cctcgcgCACCAGGTGCTTGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTtg                                                        >  5:158758/7‑149 (MQ=255)                                                                                        aTCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTtgt                                                       <  6:110400/149‑1 (MQ=255)                                                                                         tCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTtgtg                                                      <  5:32600/149‑1 (MQ=255)                                                                                            aGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTgg                                                     >  3:125963/1‑147 (MQ=255)                                                                                               aCCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCg                                                >  7:64144/1‑149 (MQ=255)                                                                                                ccTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCgg                                               >  1:233054/1‑149 (MQ=255)                                                                                                   ggTGCGCGAGGGCGATATGGAGGACGACCGATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGcc                                             >  1:216629/1‑149 (MQ=255)                                                                                                   ggTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATc                                                                                                      >  3:315145/1‑91 (MQ=255)                                                                                                   ggTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATc                                                                                                      <  4:315145/91‑1 (MQ=255)                                                                                                    gTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCtt                                           <  3:312014/149‑1 (MQ=255)                                                                                                    gTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCtt                                           <  1:139077/149‑1 (MQ=255)                                                                                                     tGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCTAAGGGTAAGGCGCATTAGGc                                                                         <  4:368149/118‑1 (MQ=255)                                                                                                     tGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCTAAGGGTAAGGCGCATTAGGc                                                                         >  3:368149/1‑118 (MQ=255)                                                                                                       cgcgAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCg                                        >  6:177620/1‑149 (MQ=255)                                                                                                         cgAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTc                                      <  3:238584/149‑1 (MQ=255)                                                                                                         cgAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTc                                      >  1:232903/1‑149 (MQ=255)                                                                                                           aGGGCGATAGGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTcgc                                    <  3:286775/149‑1 (MQ=255)                                                                                                            tggCGATATGGAGGACGACC‑ATAAATTACTGGGGGAAGTCGATTACCTGTGCGAAATTGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGTTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCtt                                           <  8:341632/140‑1 (MQ=255)                                                                                                            gggCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTCAGACATGGCCAAGACGCTGATGAACGATATCGAGATAGACAAGGGTAAGGAGCATTAGGCATTGAAGCGGTCATTTGAGGGAGCGGCCtt                                           >  7:341632/1‑141 (MQ=255)                                                                                                              gCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTTTGGGAGCGGCCTTGCGTCGCGaa                                 >  7:23833/1‑149 (MQ=255)                                                                                                               cGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGCTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTCCGTCGCGAAt                                >  5:33865/1‑149 (MQ=255)                                                                                                                    tGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGc                            <  4:13295/148‑1 (MQ=255)                                                                                                                     ggaggaCGACC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAgg                                                                          >  8:32767/1‑101 (MQ=255)                                                                                                                         gacgacC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCaaa                      <  2:216629/149‑1 (MQ=255)                                                                                                                            gacC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGTCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTATGCATTGACGCGCTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAagca                   <  5:11873/149‑1 (MQ=255)                                                                                                                             acC‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAagcag                  <  5:100210/149‑1 (MQ=255)                                                                                                                              cc‑ATAAATTCCTGGGGGCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAagcagc                 >  1:359268/1‑149 (MQ=255)                                                                                                                                            gggtCAGCCGATTACCTGTGCGACATGGCCACGGGGCTGTTGAACCATTTCGAGTTGGCCAAGGGTAAGGCGCATTAGGCTTTGAGGCGGTCATTTGTGGTAGCGGCGTTGCGTGGCGATTGGGCTGCAAAGCAGCCCCGGCGATTTCa    <  6:33865/149‑1 (MQ=255)                                                                                                                                              ggCAGCCGATTACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCaga  <  4:125963/149‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                            GTTAACCCATCCCTCAATCTCCTACGCGTAGAGCCCGGCGTCCCCGTCGACGCGGCCTACGAGCATGTCTCGATCCTGATGGGCTACATCAAGCACCTGGTGCGCGAGGGCGATATGGAGGACGACC‑ATAAATTCCTGGGGGCAGCCGA‑TACCTGTGCGACATGGCCAAGGCGCTGATGAACGATATCGAGATCGCCAAGGGTAAGGCGCATTAGGCATTGACGCGGTCATTTGTGGGAGCGGCCTTGCGTCGCGAATGGGCTGCAAAGCAGCCCCGGCGATTTCAGA  >  NC_002947/335976‑336263

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: ‑