Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,594,571	G→A	L304L (CTG→TTG)	livM ←	branched chain amino acid/phenylalanine ABC transporter membrane subunit LivM

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,594,571	0	G	A	100.0%	201.9 / NA	58	L304L (CTG→TTG)	livM	branched chain amino acid/phenylalanine ABC transporter membrane subunit LivM
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/30);  total (28/30)

ACGCCGATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAGCGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGACACG  >  NC_000913/3594436‑3594703                                                                                                                                        |                                                                                                                                     aCGCCGATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGaa                                                                                                                                  >  1:121325/1‑140 (MQ=255) aCGCCGATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGaa                                                                                                                                  <  2:791506/140‑1 (MQ=255)  cGCCGATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAAc                                                                                                                                 <  1:798358/140‑1 (MQ=255)      gATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCa                                                                                                                             >  1:50493/1‑140 (MQ=255)       aTTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAg                                                                                                                            >  2:279418/1‑140 (MQ=255)              aaaGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGAttt                                                                                                                     <  2:948984/140‑1 (MQ=255)                   tGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAg                                                                                                                            >  1:206302/1‑128 (MQ=255)                   tGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAg                                                                                                                            <  2:206302/128‑1 (MQ=255)                     aaGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTGAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCg                                                                                                                         >  2:837712/1‑129 (MQ=255)                     aaGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCg                                                                                                                         <  1:837712/129‑1 (MQ=255)                       ggATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCAc                                                                                                            <  1:674390/140‑1 (MQ=255)                            ccGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAAc                                                                                                       >  1:317661/1‑140 (MQ=255)                                gCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCtt                                                                                                   <  1:279418/140‑1 (MQ=255)                                        aGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCcacgca                                                                                           <  1:122953/140‑1 (MQ=255)                                        aGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCcacgca                                                                                           <  2:233419/140‑1 (MQ=255)                                        aGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCcacgca                                                                                           <  2:121325/140‑1 (MQ=255)                                              gACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGcccc                                                                                     >  1:288891/1‑140 (MQ=255)                                               aCGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCa                                                                                    >  1:1412/1‑140 (MQ=255)                                                  cgccgcAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCg                                                                                 <  2:336636/140‑1 (MQ=255)                                                    ccgcAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGc                                                                               >  2:357194/1‑140 (MQ=255)                                                    ccgcAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGc                                                                               >  2:560145/1‑140 (MQ=255)                                                    ccgcAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGc                                                                               >  1:683634/1‑140 (MQ=255)                                                                ttCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAgg                                                                   <  2:50493/140‑1 (MQ=255)                                                                ttCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAgg                                                                   <  2:288891/140‑1 (MQ=255)                                                                   cGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCgg                                                                >  1:592343/1‑140 (MQ=255)                                                                        aaaCCGGCAAACGCTGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAAt                                                           <  2:592343/140‑1 (MQ=255)                                                                             ggCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACaa                                                      <  2:351367/140‑1 (MQ=255)                                                                                     cgGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCtt                                              >  1:815660/1‑140 (MQ=255)                                                                                      ggCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTa                                             <  2:815660/140‑1 (MQ=255)                                                                                         aCTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGca                                          <  2:2346/140‑1 (MQ=255)                                                                                                   aaGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACcagcag                                >  2:600731/1‑140 (MQ=255)                                                                                                     ggCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACTAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAgcagca                              >  2:25870/1‑140 (MQ=255)                                                                                                     ggCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAgcagca                              >  2:666742/1‑140 (MQ=255)                                                                                                      gCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCaa                             <  2:481008/140‑1 (MQ=255)                                                                                                        aGTCAGCTTGATACGACGCGGGCTTAGGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACg                           <  2:580798/140‑1 (MQ=255)                                                                                                        aGTCAGCTTGATACGACGC‑GGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGc                          <  1:704150/140‑1 (MQ=255)                                                                                                         gTCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGc                          >  2:574537/1‑140 (MQ=255)                                                                                                          tCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCaa                             <  1:394088/136‑1 (MQ=255)                                                                                                          tCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCaa                             >  2:394088/1‑136 (MQ=255)                                                                                                          tCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGcc                         >  1:929653/1‑140 (MQ=255)                                                                                                          tCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGACAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGcacc                                        <  2:901113/125‑1 (MQ=255)                                                                                                          tCAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGACAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGcacc                                        >  1:901113/1‑125 (MQ=255)                                                                                                           cAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGcca                        >  2:462311/1‑140 (MQ=255)                                                                                                           cAGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGcca                        <  1:574537/140‑1 (MQ=255)                                                                                                            aGCTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGccac                       <  1:357194/140‑1 (MQ=255)                                                                                                              cTTGATACGACGCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGccacca                     >  1:800605/1‑140 (MQ=255)                                                                                                                      gacgCGGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAgg             <  1:560145/140‑1 (MQ=255)                                                                                                                        cgcgGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAgg                   <  2:466249/132‑1 (MQ=255)                                                                                                                        cgcgGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAgg                   >  1:466249/1‑132 (MQ=255)                                                                                                                        cgcgGGCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGaa           >  2:250049/1‑140 (MQ=255)                                                                                                                            ggCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATg       >  2:805812/1‑140 (MQ=255)                                                                                                                            ggCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATg       >  2:174842/1‑140 (MQ=255)                                                                                                                             gCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGcca                        <  2:435675/122‑1 (MQ=255)                                                                                                                             gCTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGcca                        >  1:435675/1‑122 (MQ=255)                                                                                                                              cTTAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGac     <  2:317661/140‑1 (MQ=255)                                                                                                                               ttAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGaca    <  2:800605/140‑1 (MQ=255)                                                                                                                               ttAAGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGaca    <  1:557607/140‑1 (MQ=255)                                                                                                                                 aaGCCCAACGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGACACg  >  2:433079/1‑140 (MQ=255)                                                                                                                                        |                                                                                                                                     ACGCCGATTCGGCAAAGGTGAAGGATTCCGGGCTGACAAAGCCCTGACGCGCCGCAAACAGCGTTCCGGCAAAACCGGCAAACGCGGCACTTATGGTAAAGGCAGTCAGCTTGATACGACGCGGGCTTAAGCCCAGCGAACGGCAGGCGATTTCATCTTCACGCAACGCTTCCCACGCACGCCCCAGCGGCATCCGCAGCAGGCGGTTAATGACAAACAGGCTTAGCACCACCAGCAGCAACGCCACCAGGTAGAGGAAGATGACACG  >  NC_000913/3594436‑3594703

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑