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%	150.7 / NA	48	*141* (TAG→TAA)	yphA	DoxX family inner membrane protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/22);  total (26/22)

GGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAGGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGAGATCACCCCCTTCCGGGCGA  >  NC_000913/2673655‑2673900                                                                                                                  |                                                                                                                                     ggCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAAc                                                                                                             >  2:479916/1‑139 (MQ=255)   cGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGc                                                                                                           >  2:1307202/1‑139 (MQ=255)      tGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCtt                                                                                                        >  2:1326367/1‑139 (MQ=255)        cGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTAt                                                                                                      >  2:1291363/1‑139 (MQ=255)             gggCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                                                                 >  1:925563/1‑139 (MQ=255)               gCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCTCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                   >  2:288300/1‑135 (MQ=255)               gCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCTCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                   <  1:288300/135‑1 (MQ=255)                     tatGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaata                                                                                         >  2:477018/1‑139 (MQ=255)                                    gaagaaTGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCActct                                                                          >  1:1066667/1‑139 (MQ=255)                                          tGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGc                                                                    <  1:1326367/139‑1 (MQ=255)                                              aGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgc                                                                                                                      <  2:1087642/85‑1 (MQ=255)                                              aGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATgc                                                                                                                      >  1:1087642/1‑85 (MQ=255)                                              aGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACg                                                                >  1:382983/1‑139 (MQ=255)                                                        gcgcGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                                              >  2:757829/1‑131 (MQ=255)                                                        gcgcGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGAc                                                              <  1:757829/131‑1 (MQ=255)                                                                   cTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGAtt                                           <  1:786480/139‑1 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTa                                                                                    >  1:428180/1‑93 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTa                                                                                    <  2:428180/93‑1 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                                      >  1:784056/1‑139 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                                      >  1:1001665/1‑139 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                                      >  1:907567/1‑139 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                                      >  1:805006/1‑139 (MQ=255)                                                                        ggCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCt                                      >  2:404366/1‑139 (MQ=255)                                                                             ttACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                                               <  1:792938/109‑1 (MQ=255)                                                                             ttACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                                               >  2:792938/1‑109 (MQ=255)                                                                             ttACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGc                                 <  2:1066667/139‑1 (MQ=255)                                                                                ccgggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAg                              <  2:907567/139‑1 (MQ=255)                                                                                ccgggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAg                              <  2:1001665/139‑1 (MQ=255)                                                                                 cgggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAgc                             <  1:479916/139‑1 (MQ=255)                                                                                   ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                                               >  2:564937/1‑103 (MQ=255)                                                                                   ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGa                                                               <  1:564937/103‑1 (MQ=255)                                                                                   ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACAtc                                                           <  1:313256/107‑1 (MQ=255)                                                                                   ggccgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACAtc                                                           >  2:313256/1‑107 (MQ=255)                                                                                      cgggGGCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAAt                        <  2:925563/139‑1 (MQ=255)                                                                                        ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                                          >  2:187198/1‑71 (MQ=255)                                                                                        ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTtaat                                                                                          <  1:187198/71‑1 (MQ=255)                                                                                        ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGa                                             <  1:1185805/116‑1 (MQ=255)                                                                                        ggggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGa                                             >  2:1185805/1‑116 (MQ=255)                                                                                          ggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCActct                                                                          >  1:1246021/1‑85 (MQ=255)                                                                                          ggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCActct                                                                          <  2:1246021/85‑1 (MQ=255)                                                                                          ggCAATTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATgaga                    <  2:382983/139‑1 (MQ=255)                                                                                             aaTTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTg                                                                                                                >  1:1238656/1‑44 (MQ=255)                                                                                             aaTTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTg                                                                                                                <  2:1238656/44‑1 (MQ=255)                                                                                              aTTTCTCTCGATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGAGATCAc                >  1:475556/1‑139 (MQ=255)                                                                                                       gATCGGCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGAGATCACCCCCTTCCg       <  2:784056/139‑1 (MQ=255)                                                                                                            gCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATc                                                                                                     >  2:1291664/1‑40 (MQ=17)                                                                                                            gCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATc                                                                                                     <  1:1291664/40‑1 (MQ=17)                                                                                                            gCGTTAAGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGAGATCACCCCCTTCCGGGCga  <  2:475556/139‑1 (MQ=255)                                                                                                                  |                                                                                                                                     GGCGATGCGGTTGGGCCAAATATGATTAATTTCTGGAAGAATGTCAGTATCGCTGGCGCGTTCTTGCTATTGGCAATTACCGGGCCGGGGGCAATTTCTCTCGATCGGCGTTAGGAAAGATGCCGGATGCGGCGTGAACGCCTTATCCGGCATTTAATAAATTACAGCCACTCTACCCGCAACGACATCTCTGAAGTTGTTGATTCCCCTGGTGCTAGCGCAATGAGATCACCCCCTTCCGGGCGA  >  NC_000913/2673655‑2673900

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑