Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,238,760	T→C	L397P (CTG→CCG)	dadA →	D‑amino acid dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,238,760	0	T	C	100.0%	204.9 / NA	56	L397P (CTG→CCG)	dadA	D‑amino acid dehydrogenase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (25/31);  total (25/31)

GGTCTGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCTGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGACCCGTCCGATACAG  >  NC_000913/1238627‑1238896                                                                                                                                      |                                                                                                                                         ggTCTGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGctctc                                                                                                                                    >  1:980283/1‑140 (MQ=255)  gTCTGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGctctct                                                                                                                                   >  1:866979/1‑140 (MQ=255)    cTGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTgg                                                                                                                                 >  2:254164/1‑140 (MQ=255)     tGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGt                                                                                                                                <  1:434193/140‑1 (MQ=255)         cccGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCa                                                                                                                            <  1:223803/140‑1 (MQ=255)            gATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTgg                                                                                                                                 >  2:843288/1‑132 (MQ=255)            gATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTgg                                                                                                                                 <  1:843288/132‑1 (MQ=255)            gATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGc                                                                                                                         >  2:698592/1‑140 (MQ=255)            gATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGc                                                                                                                         >  1:4369/1‑140 (MQ=255)             aTGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTAGCACGcc                                                                                                                        >  2:63100/1‑140 (MQ=255)              tGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCa                                                                                                                       <  2:635686/140‑1 (MQ=255)                aCGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGc                                                                                                                     <  2:538448/140‑1 (MQ=255)                aCGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGc                                                                                                                     <  2:4369/140‑1 (MQ=255)                aCGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGc                                                                                                                     <  2:427742/140‑1 (MQ=255)                 cGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCg                                                                                                                    <  2:348368/140‑1 (MQ=255)                  gCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGa                                                                                                                   <  2:845670/140‑1 (MQ=255)                   ccAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGAt                                                                                                                  <  1:173871/140‑1 (MQ=255)                    cAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATc                                                                                                                 <  1:1088994/140‑1 (MQ=255)                      gACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATccc                                                                                                               <  1:286713/140‑1 (MQ=255)                           cACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATg                                                                                                          >  2:272140/1‑140 (MQ=255)                            aCGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGa                                                                                                         >  1:340695/1‑140 (MQ=255)                                cGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAg                                                                                                                      <  1:508023/123‑1 (MQ=255)                                cGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAg                                                                                                                      >  2:508023/1‑123 (MQ=255)                                        gggCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGt                                                                                             >  1:350951/1‑140 (MQ=255)                                         ggCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTa                                                                                            >  1:864888/1‑140 (MQ=255)                                          gCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAg                                                                                           <  2:980283/140‑1 (MQ=255)                                            gTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAgcg                                                                                         >  2:463843/1‑140 (MQ=255)                                             tACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAACGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAgcgc                                                                                        >  2:693357/1‑140 (MQ=255)                                                      tAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGcc                                                                               <  2:864888/140‑1 (MQ=255)                                                              tgtgGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGAttt                                                                       >  2:717129/1‑140 (MQ=255)                                                                tgGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTAc                                                                     >  1:870579/1‑140 (MQ=255)                                                                tgGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTAc                                                                     >  1:134292/1‑140 (MQ=255)                                                                  gCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGc                                                                   >  1:72490/1‑140 (MQ=255)                                                                          ccGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGt                                                           <  2:870579/140‑1 (MQ=255)                                                                             gTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCg                                                        >  2:1648/1‑140 (MQ=255)                                                                             gTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCg                                                        >  1:40453/1‑140 (MQ=255)                                                                             gTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCg                                                        >  1:442092/1‑140 (MQ=255)                                                                              tCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCgg                                                       <  1:693357/140‑1 (MQ=255)                                                                              tCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCgg                                                       <  2:350951/140‑1 (MQ=255)                                                                              tCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCgg                                                       <  1:717129/140‑1 (MQ=255)                                                                                  ggCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCa                                                   >  1:887339/1‑140 (MQ=255)                                                                                       gCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTAc                                              <  1:74141/140‑1 (MQ=255)                                                                                       gCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTAc                                              <  2:340695/140‑1 (MQ=255)                                                                                        cTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTAc                                              <  1:1076185/139‑1 (MQ=255)                                                                                        cTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTAc                                              >  2:1076185/1‑139 (MQ=255)                                                                                           ggCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATgg                                          <  2:737660/140‑1 (MQ=255)                                                                                               ggACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGca                                      <  2:40453/140‑1 (MQ=255)                                                                                                 aCGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGcaca                                    <  1:254164/140‑1 (MQ=255)                                                                                                       gCTTGCGGTTCCGGTCAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTa                              <  2:134292/140‑1 (MQ=255)                                                                                                                   ggTCAGTTGTTAAGCGATCCGCTCTCTGGTAGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGAt                  <  1:63100/140‑1 (MQ=255)                                                                                                                      cAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATggc               <  1:1648/140‑3 (MQ=255)                                                                                                                      cAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGAc               <  1:486818/140‑1 (MQ=255)                                                                                                                      cAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGAc               <  1:698592/140‑1 (MQ=255)                                                                                                                      cAGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGAc               <  2:424483/140‑1 (MQ=255)                                                                                                                      cAGTTGATAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCAACAGGCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGGGATgcc               <  2:96606/140‑3 (MQ=255)                                                                                                                       aGTTGTTAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGAcc              >  2:922826/1‑140 (MQ=255)                                                                                                                           gttAAGCGATCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGACCCGTc          <  2:116854/140‑1 (MQ=255)                                                                                                                                   aTCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACCGCTAAGGAAACGAGATGACCCGTCCGATACAg  >  2:106518/1‑140 (MQ=255)                                                                                                                                   aTCCGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGACCCGTCCGATACAg  >  2:369933/1‑140 (MQ=255)                                                                                                                                      |                                                                                                                                         GGTCTGCGCCCGATGACGCCAGACGGCACGCCGGTTGTCGGGCGTACACGCTTTAAAAATCTGTGGCTGAATACCGGTCACGGCACGCTCGGCTGGACGATGGCTTGCGGTTCCGGTCAGTTGTTAAGCGATCTGCTCTCTGGTCGCACGCCAGCGATCCCATATGAGGATCTAAGCGTAGCGCGCTACAGCCGTGGATTTACGCCATCACGTCCGGGCCATTTACATGGCGCACACAGCTAAGGAAACGAGATGACCCGTCCGATACAG  >  NC_000913/1238627‑1238896

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑