Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,928,356	C→T	A416A (GCG→GCA)	viaA ←	stimulator of RavA ATPase activity, von Willebrand factor domain protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,928,356	0	C	T	100.0%	216.0 / NA	62	A416A (GCG→GCA)	viaA	stimulator of RavA ATPase activity, von Willebrand factor domain protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/29);  total (33/29)

TGCCGGGTTTGCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACCGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTTGTGGGCCTGAAA  >  NC_000913/3928229‑3928489                                                                                                                                |                                                                                                                                      tgCCGGGTTTGCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATc                                                                                                                            >  1:1125103/1‑139 (MQ=255) tgCCGGGTTTGCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATc                                                                                                                            >  2:662238/1‑139 (MQ=255)           gCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATc                                                                                                                            >  2:713339/1‑129 (MQ=255)           gCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATc                                                                                                                            <  1:713339/129‑1 (MQ=255)           gCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTcc                                                                                                                  >  1:462452/1‑139 (MQ=255)           gCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTcc                                                                                                                  >  1:867174/1‑139 (MQ=255)           gCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTcc                                                                                                                  >  1:620937/1‑139 (MQ=255)                     gACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCa                                                                                                        <  2:449671/139‑1 (MQ=255)                         tCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCg                                                                                                    <  2:321147/139‑1 (MQ=255)                                 gCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATaa                                                                                            <  2:1125103/139‑1 (MQ=255)                                    tGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  1:296868/126‑1 (MQ=255)                                    tGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  2:296868/1‑126 (MQ=255)                                                  aTGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCaa                                                                                                       <  1:1506887/111‑1 (MQ=255)                                                  aTGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCaa                                                                                                       >  2:1506887/1‑111 (MQ=255)                                                  aTGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTg                                                                           >  2:474168/1‑139 (MQ=255)                                                   tGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTgg                                                                          <  1:1279680/139‑1 (MQ=255)                                                       cccGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAg                                                                      >  2:1357902/1‑139 (MQ=255)                                                            tGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCgg                                                                 >  2:559937/1‑139 (MQ=255)                                                            tGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCgg                                                                 >  1:1128656/1‑139 (MQ=255)                                                            tGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCgg                                                                 >  1:799128/1‑139 (MQ=255)                                                                gCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  2:222921/98‑1 (MQ=255)                                                                gCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  1:222921/1‑98 (MQ=255)                                                                      tCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  2:515746/1‑92 (MQ=255)                                                                      tCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  1:515746/92‑1 (MQ=255)                                                                           ttACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  1:951990/1‑87 (MQ=255)                                                                           ttACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAACCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  2:951990/87‑1 (MQ=255)                                                                            tACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCa                                                                                                                              >  2:1072772/1‑62 (MQ=255)                                                                            tACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCa                                                                                                                              <  1:1072772/62‑1 (MQ=255)                                                                            tACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAActg                                                 >  1:675941/1‑139 (MQ=255)                                                                              cTCGTCACGTTGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGaaaa                                                                                 >  1:1346157/1‑105 (MQ=255)                                                                              cTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  2:247969/84‑1 (MQ=255)                                                                              cTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  1:247969/1‑84 (MQ=255)                                                                              cTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGaaaa                                                                                 <  2:1346157/105‑1 (MQ=255)                                                                                cGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTgg                                             >  1:105039/1‑139 (MQ=255)                                                                                   cACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCtt                                          >  1:846511/1‑139 (MQ=255)                                                                                    aCGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTa                                         >  1:428729/1‑139 (MQ=255)                                                                                      gtcgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAaacaa                                                                              >  1:265382/1‑100 (MQ=255)                                                                                      gtcgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAaacaa                                                                              <  2:265382/100‑1 (MQ=255)                                                                                      gtcgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTaaa                                       <  1:474168/139‑1 (MQ=255)                                                                                      gtcgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTaaa                                       >  1:280613/1‑139 (MQ=255)                                                                                        cgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCg                                                                                                    >  2:476832/1‑76 (MQ=255)                                                                                        cgtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCg                                                                                                    <  1:476832/76‑1 (MQ=255)                                                                                         gtcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTaaaaaa                                    <  1:662238/139‑1 (MQ=255)                                                                                          tcAGGCAACCGCTGAGCGATAAAATCAGAAATCACCATTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAAc                                   <  2:675941/139‑1 (MQ=255)                                                                                              gCAACCGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGAt                               <  2:846511/139‑1 (MQ=255)                                                                                                  ccGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      <  2:1499398/64‑1 (MQ=255)                                                                                                  ccGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAg                                                                                                      >  1:1499398/1‑64 (MQ=255)                                                                                                   cGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTccc                                                                                                                 >  1:106841/1‑52 (MQ=255)                                                                                                   cGCTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTccc                                                                                                                 <  2:106841/52‑1 (MQ=255)                                                                                                     cTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACg                                                       >  1:668434/1‑108 (MQ=255)                                                                                                     cTGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACg                                                       <  2:668434/108‑1 (MQ=255)                                                                                                      tGAGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGtt                       <  1:559937/139‑1 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGtt                                                                                                  <  2:1358179/62‑1 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGtt                                                                                                  >  1:1358179/1‑62 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCg                     >  1:974439/1‑139 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCg                     <  2:799128/139‑1 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCg                     >  1:64189/1‑139 (MQ=255)                                                                                                        aGCGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCAGGCTTAAAAAACGGATTGCTTGTTCg                     >  2:961059/1‑139 (MQ=255)                                                                                                          cGATAAAATCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGAt                   <  2:867174/139‑1 (MQ=255)                                                                                                                aaTCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCCTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCTCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTtg             <  1:961059/139‑1 (MQ=255)                                                                                                                  tCAGAAATCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTtgtg           <  2:428729/139‑1 (MQ=255)                                                                                                                         tCACCACTGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTTGTGGGCCTGa    <  1:642146/139‑1 (MQ=255)                                                                                                                           accactGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACt                                                                            >  1:923695/1‑65 (MQ=255)                                                                                                                           accactGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACt                                                                            <  2:923695/65‑1 (MQ=255)                                                                                                                           accactGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTTGTGGGCCTGaaa  >  2:1092589/1‑139 (MQ=255)                                                                                                                                |                                                                                                                                      TGCCGGGTTTGCCGTGTGCCGACATCGCCACGGCATGAAAGCGATGCTGATGTACCCGCTGCAGCTCTTTCACTTTACTCGTCACGTCGTCAGGCAACCGCTGAGCGATAAAATCAGAAATCACCACCGCATCGGCATCAAACCATTCCCTGCTTTGCAAGCGTTCCATAATGGCGCGAAAACAACTGGCAAGATCGGTGCCGCCACGAAACTGCTGGCTTAAAAAACGGATTGCTTGTTCGATGCCTTGTGGGCCTGAAA  >  NC_000913/3928229‑3928489

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑