Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,224,209	T→C	Y128H (TAC→CAC)	metH →	cobalamin‑dependent methionine synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,224,209	0	T	C	100.0%	156.2 / NA	48	Y128H (TAC→CAC)	metH	cobalamin‑dependent methionine synthase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/28);  total (20/28)

CAACTCCACGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAGCGCTGGTGGAAG  >  NC_000913/4224079‑4224344                                                                                                                                   |                                                                                                                                        cAACTCCATGACCATTGCGATGACGGATTACCAGATGGAGTCCCTGTCCGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCg                                                                                                                                <  2:387254/140‑1 (MQ=255)  aaCTCCACGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACg                                                                                                                                      >  2:636508/1‑133 (MQ=255)  aaCTCCACGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACg                                                                                                                                      <  1:636508/133‑1 (MQ=255)  aaCTCCACGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCgg                                                                                                                               <  2:767824/140‑1 (MQ=255)        aCGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGGGTGGACCGGGCGAAGGGCAGAGAAACCGCGTCACGTTGCCGGTGTtct                                                                                                                         >  2:392730/1‑140 (MQ=255)            ccATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGGAACCGCCCCACGTAGCCGGTGTTCTCGGc                                                                                                                     >  1:328787/1‑140 (MQ=255)             cATTGCGATGGCGGACTACCAGATGGAATACCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGcc                                                                                                                    <  1:278314/140‑1 (MQ=255)               ttGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCg                                                                                                                  <  2:6399/140‑1 (MQ=255)               ttGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACACCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCg                                                                                                                  >  1:718496/1‑140 (MQ=255)                 gCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGGGCGCACGCCAGAAAAATCGCGCCACTTTGCAGGTGTTCTCGGCCCGAc                                                                                                                >  2:278314/1‑140 (MQ=255)                         ggATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCa                                                                                                        <  1:406418/140‑1 (MQ=255)                            ttACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGTGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACgg                                                                                                     >  1:412319/1‑140 (MQ=255)                                  gATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTa                                                                                               >  2:73836/1‑140 (MQ=255)                                    tGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTAtt                                                                                             >  1:509957/1‑140 (MQ=255)                                     ggAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGACCTTGTGCTGACGAGTGGACCGCGCGCACGCCCGAGAAACCGCGCCACGTTGCCCGTGTTCTCGGCCCGACCAACCGCCCGCCGTCTAttt                                                                                            >  2:190646/1‑140 (MQ=255)                                       aaTCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGATGTTCTCTGCCAGAACAACCGAACGGCGTCTATTtct                                                                                          >  1:208752/1‑140 (MQ=255)                                       aaTCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGACACGTTGCGGGTATTCGCGGCCCGATCAACGGCACGGCGTCTATTtct                                                                                          >  2:219246/1‑140 (MQ=255)                                        aTCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAACCCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTtctc                                                                                         <  2:693578/140‑1 (MQ=255)                                         tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTcc                                                                                        >  1:123658/1‑140 (MQ=255)                                          cccTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGTGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCg                                                                                       <  2:412319/140‑1 (MQ=255)                                          cccTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCg                                                                                       <  1:73836/140‑1 (MQ=255)                                             tGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGAc                                                                                    >  2:491857/1‑140 (MQ=255)                                                 ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGGCCGACCAACCGGACGGCGTCTGTTTCTCCGGACGTCa                                                                                >  1:209493/1‑140 (MQ=255)                                                 ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCa                                                                                >  1:11441/1‑140 (MQ=255)                                                       actCACCTTTGCGGCGGCGACACTGGCGCGAGCTTGTGCTGACGAGTGGACAGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATc                                                                          <  1:65128/138‑1 (MQ=255)                                                          cAACTTTGCGGCGGCTAAACTGACGAGAGCTTGTGCTCACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCgg                                                                       <  1:219246/140‑1 (MQ=255)                                                            aCTTTGCGGCGGCGACACTGGCTCGCGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCa                                                                     <  1:390745/140‑1 (MQ=255)                                                            aCTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCa                                                                     <  1:491857/140‑1 (MQ=255)                                                                 gcggcggcgAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCg                                                                <  1:123615/140‑1 (MQ=255)                                                                  cggcggcgAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGt                                                               >  1:657410/1‑140 (MQ=255)                                                                          aaaCTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCAc                                                       <  1:155782/140‑1 (MQ=255)                                                                               ggCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTg                                                  <  2:657410/140‑1 (MQ=255)                                                                                gcgcGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGa                                                 <  2:88949/140‑1 (MQ=255)                                                                                 cgcgAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGAc                                                >  1:548821/1‑140 (MQ=255)                                                                                 cgcgAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGAc                                                <  2:509957/140‑1 (MQ=255)                                                                                            gCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTggc                                     <  2:548821/140‑1 (MQ=255)                                                                                            gCTGACGAGTGGACCGCCCGCATGCCAGAGATACCCCGCCACGTTGCCTGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTggc                                     <  2:208752/140‑1 (MQ=255)                                                                                              tGACGAGTGGACCGCGCGCCCGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTggcgg                                   <  2:435142/140‑1 (MQ=255)                                                                                                aCGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGAGGTGAACGATCCGGCATTACGTAATATCAATTTTTTCGGGCTGGTGGCGGCt                                 >  2:396720/1‑140 (MQ=255)                                                                                                aCGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTTAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCt                                 >  2:268650/1‑140 (MQ=255)                                                                                                aCGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCt                                 >  2:149096/1‑140 (MQ=255)                                                                                                aCGAGTGGACCGCGCGCACACCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCt                                 <  2:718496/140‑1 (MQ=255)                                                                                                      ggACCGCGCGCACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCga                           <  1:268650/140‑1 (MQ=255)                                                                                                        aCCGCGCGCACGCCACAGAAACAGCACCATGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCgaga                         <  1:343119/140‑1 (MQ=255)                                                                                                           gcgcgcACGCCAGAGAAGCCGCCCCACGTTGCCGGCGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTc                      <  2:328787/140‑1 (MQ=255)                                                                                                           gcgcgcACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTc                      <  2:173899/140‑1 (MQ=255)                                                                                                            cgcgcACGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAACATCACTTTTGACGGGCGGGTGTCGGCTTATCGAGAGTcc                     >  2:263550/1‑140 (MQ=255)                                                                                                                  cGCCAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGAAATATCACCTTTCACGCGCTGGTGGGGGCTAATCGAGAGTCCACCaaa               >  2:343119/1‑140 (MQ=255)                                                                                                                   gCCAGAGAGACCGCGCCGCGTTACCGGTGTTCTCGTCCCGACCAACCGCATTGCGTCTATTTCTCCGGATGTAAACGATCCGGCATTTCTTAATAACACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAg              <  2:311737/140‑1 (MQ=255)                                                                                                                   gCCAGAGAAACCGCGACACGTTTCCCGTGCTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAg              <  1:263550/140‑1 (MQ=255)                                                                                                                     cAGAGAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAgcg            <  2:11441/140‑1 (MQ=255)                                                                                                                      agagAAACCGCGCCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAgcgc           <  2:123658/140‑1 (MQ=255)                                                                                                                               gcgcCACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAGCGCTGGTGGAAg  >  2:571637/1‑140 (MQ=255)                                                                                                                                   |                                                                                                                                        CAACTCCACGACCATTGCGATGGCGGATTACCAGATGGAATCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTATTTCTCCGGACGTCAACGATCCGGCATTTCGTAATATCACTTTTGACGGGCTGGTGGCGGCTTATCGAGAGTCCACCAAAGCGCTGGTGGAAG  >  NC_000913/4224079‑4224344

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑