Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,673,768	G→A	*141* (TAG→TAA)	yphA →	DoxX family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,673,768	0	G	A	100.0%	232.7 / NA	71	*141* (TAG→TAA)	yphA	DoxX family inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (35/36);  total (35/36)

CTGGGATATGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAGGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGA  >  NC_000913/2673642‑2673880                                                                                                                               |                                                                                                                 cTGGGATATGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCgg                                                                                                      >  1:1238724/1‑139 (MQ=255)      atatGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcg                                                                                                 >  1:1162134/1‑139 (MQ=255)         tGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcggcg                                                                                              >  1:1230246/1‑139 (MQ=255)         tGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcggcg                                                                                              >  2:1141660/1‑139 (MQ=255)         tGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcggcg                                                                                              >  2:1467260/1‑139 (MQ=255)            ccGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           <  1:1141660/139‑1 (MQ=255)            ccGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           <  1:1467260/139‑1 (MQ=255)             cGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGaa                                                                                          <  2:1238724/139‑1 (MQ=255)               gCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcggcg                                                                                              >  1:602043/1‑133 (MQ=255)               gCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgcggcg                                                                                              <  2:602043/133‑1 (MQ=255)                                aaTATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaa                                                                       <  2:1386815/139‑1 (MQ=255)                                      aTTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATc                                                                                 >  2:1501274/1‑123 (MQ=255)                                      aTTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATc                                                                                 <  1:1501274/123‑1 (MQ=255)                                       ttAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTa                                                                <  2:1228393/139‑1 (MQ=255)                                                     aaTGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                      <  1:1318303/119‑1 (MQ=255)                                                     aaTGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                      >  2:1318303/1‑119 (MQ=255)                                                         tCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCaa                                              >  1:55027/1‑139 (MQ=255)                                                           aGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           <  1:1433768/92‑1 (MQ=255)                                                           aGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           >  2:1433768/1‑92 (MQ=255)                                                            gTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTAc                                                               >  2:1066713/1‑119 (MQ=255)                                                            gTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                           <  2:1162134/139‑1 (MQ=255)                                                            gTATCGCTGGCGCGTTCATGCTATTGGCAATTACCGGGCCGCGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTAc                                                               <  1:1066713/119‑1 (MQ=255)                                                                 gCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                           <  1:619918/134‑1 (MQ=255)                                                                 gCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                           >  2:619918/1‑134 (MQ=255)                                                                 gCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACAtct                                      >  2:170459/1‑139 (MQ=255)                                                                  cTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACAtctc                                     >  2:1066810/1‑139 (MQ=255)                                                                   tGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATctct                                    >  1:1391378/1‑139 (MQ=255)                                                                      cgcgTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGaa                                 <  2:55027/139‑1 (MQ=255)                                                                               gCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGAt                        <  2:1230246/139‑1 (MQ=255)                                                                                cTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGAtt                       <  2:468620/139‑1 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTg                                                                                            <  1:1240184/65‑1 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTg                                                                                            >  2:1240184/1‑65 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCa                                                                            <  1:309707/81‑1 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCa                                                                            >  2:309707/1‑81 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGc                                                            <  1:888436/97‑1 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                          <  1:1346042/115‑1 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                          >  2:1346042/1‑115 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                  >  1:1270084/1‑139 (MQ=255)                                                                                     ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTAAATAAATTACAGc                                                            >  2:888436/1‑97 (MQ=255)                                                                                         aTTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTg              <  2:1270084/139‑1 (MQ=255)                                                                                            aCCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTa           <  2:1391378/139‑1 (MQ=255)                                                                                             ccgggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAg          <  1:1066810/139‑1 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                      <  2:1031738/76‑1 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                      >  1:1031738/1‑76 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCAct                                                        <  2:1550956/90‑1 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCAct                                                        >  1:1550956/1‑90 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAAc                                             <  1:1201601/101‑1 (MQ=255)                                                                                                ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAAc                                             >  2:1201601/1‑101 (MQ=255)                                                                                                 gccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAAt                                                                  <  1:1665956/79‑1 (MQ=255)                                                                                                 gccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAAt                                                                  >  2:1665956/1‑79 (MQ=255)                                                                                                  ccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGAt                        >  2:660868/1‑120 (MQ=255)                                                                                                  ccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGAt                        <  1:660868/120‑1 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           <  2:63184/50‑1 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGa                                                                                           >  1:63184/1‑50 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTta                                                                        >  1:1584943/1‑69 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTta                                                                        <  2:1584943/69‑1 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAgtt                              >  1:1499132/1‑111 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAgtt                              <  2:1499132/111‑1 (MQ=255)                                                                                                     ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATga  >  2:810951/1‑139 (MQ=255)                                                                                                      gggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACg                                                                                        <  2:32196/52‑1 (MQ=255)                                                                                                      gggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACg                                                                                        >  1:32196/1‑52 (MQ=255)                                                                                                       ggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTta                                                                        <  2:620757/67‑1 (MQ=255)                                                                                                       ggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTta                                                                        >  1:620757/1‑67 (MQ=255)                                                                                                            tttCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                          >  2:195616/1‑92 (MQ=255)                                                                                                            tttCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                          <  1:195616/92‑1 (MQ=255)                                                                                                                 ctcGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGaa                                                                                          >  1:934321/1‑39 (MQ=25)                                                                                                                 ctcGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGaa                                                                                          <  2:934321/39‑1 (MQ=25)                                                                                                                     aTCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                           <  2:1593481/82‑1 (MQ=255)                                                                                                                     aTCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                           >  1:1593481/1‑82 (MQ=255)                                                                                                                          cGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAgcgc       <  2:78780/113‑1 (MQ=255)                                                                                                                          cGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAgcgc       >  1:78780/1‑113 (MQ=255)                                                                                                                               |                                                                                                                 CTGGGATATGACCGGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAGGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGA  >  NC_000913/2673642‑2673880

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑