Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,594,875	G→T	G202G (GGC→GGA)	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	3,594,875	0	G	T	100.0%	167.1 / NA	50	G202G (GGC→GGA)	livM	branched chain amino acid/phenylalanine ABC transporter membrane subunit LivM
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (21/29);  total (21/29)

TGAACGTGTCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCGCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGT  >  NC_000913/3594739‑3595002                                                                                                                                         |                                                                                                                                 tGAACGTGTCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCg                                                                                                                               <  1:718881/140‑1 (MQ=255)    aCGTGTCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGaaa                                                                                                                            >  1:580561/1‑140 (MQ=255)     cGTGTCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAAc                                                                                                                           <  1:581525/140‑1 (MQ=255)      gtgtCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAAcc                                                                                                                          <  1:171312/140‑1 (MQ=255)      gtgtCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAAcc                                                                                                                          <  1:363540/140‑1 (MQ=255)           ccAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAggg                                                                                                                     <  1:305395/140‑1 (MQ=255)           ccAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAggg                                                                                                                     <  1:596638/140‑1 (MQ=255)              gccgccTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGCTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATGTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTaa                                                                                                                  >  2:308903/1‑140 (MQ=255)                  ccTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGAt                                                                                                              >  2:60093/1‑140 (MQ=255)                             ggTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGt                                                                                                   >  2:568234/1‑140 (MQ=255)                                aCGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCAc                                                                                                >  1:78580/1‑140 (MQ=255)                                aCGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCAc                                                                                                <  2:421979/140‑1 (MQ=255)                                     tGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCgcgc                                                                                           <  1:322725/140‑1 (MQ=255)                                       aaCTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑aa                                                                                        >  2:644683/1‑140 (MQ=255)                                                 cGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCAcc                                                                              >  1:637451/1‑140 (MQ=255)                                                    agagTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGa                                                                           <  1:568234/140‑1 (MQ=255)                                                        tgtCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAAc                                                                       >  1:126900/1‑140 (MQ=255)                                                        tgtCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAAc                                                                       >  1:654724/1‑140 (MQ=255)                                                          tCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCg                                                                     <  1:175634/140‑1 (MQ=255)                                                          tCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCg                                                                     >  2:175634/1‑140 (MQ=255)                                                           cGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGa                                                                    <  2:703068/140‑1 (MQ=255)                                                             gTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGc                                                                  <  2:78580/140‑1 (MQ=255)                                                                tCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCCGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAgg                                                               >  2:133175/1‑140 (MQ=255)                                                                          actgaTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCg                                                                     <  1:67516/124‑1 (MQ=255)                                                                          actgaTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCg                                                                     >  2:67516/1‑124 (MQ=255)                                                                          actgaTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCccgccg                                                     >  2:672097/1‑140 (MQ=255)                                                                             gaTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCccgccgccg                                                  <  1:672097/140‑1 (MQ=255)                                                                              aTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCcgccgccgc                                                 >  2:332072/1‑140 (MQ=255)                                                                              aTTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCcgccgccgc                                                 <  1:308903/140‑1 (MQ=255)                                                                               ttCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCt                                                <  2:637451/140‑1 (MQ=255)                                                                                tCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTg                                               >  1:686860/1‑140 (MQ=255)                                                                                    ttCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCAt                                           >  2:499206/1‑140 (MQ=255)                                                                                    ttCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCAt                                           >  1:88636/1‑140 (MQ=255)                                                                                    ttCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCAt                                           <  2:686860/140‑1 (MQ=255)                                                                                    ttCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCAt                                           >  1:438988/1‑140 (MQ=255)                                                                                    ttCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGACACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCAt                                           >  1:541027/1‑140 (MQ=255)                                                                                             ccgGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGc                                  <  2:704098/140‑1 (MQ=255)                                                                                             ccgGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGc                                  <  2:326183/140‑1 (MQ=255)                                                                                             ccgGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGc                                  <  2:48743/140‑1 (MQ=255)                                                                                                   aTTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCgg                            <  2:580561/140‑1 (MQ=255)                                                                                                   aTTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCgg                            <  1:78318/140‑1 (MQ=255)                                                                                                   aTTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCgg                            <  1:332072/140‑1 (MQ=255)                                                                                                           gtTATTGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGcaggcagg                    >  2:536381/1‑140 (MQ=255)                                                                                                                tGAGCAGCAATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAg               <  1:650808/140‑1 (MQ=255)                                                                                                                    cagcaATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGc           >  1:751483/1‑140 (MQ=255)                                                                                                                     agcaATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGcc          <  2:438988/140‑1 (MQ=255)                                                                                                                       caATATGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCa        <  1:536381/140‑1 (MQ=255)                                                                                                                        aaTATGCGCAAAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGCAAAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCa        <  2:650888/140‑1 (MQ=255)                                                                                                                         atatGCGCACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAg      <  2:88636/140‑1 (MQ=255)                                                                                                                             gcgcACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGt  <  1:60093/140‑1 (MQ=255)                                                                                                                              cgcACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAg               <  1:175247/126‑1 (MQ=255)                                                                                                                              cgcACAATTTCTCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAg               >  2:175247/1‑126 (MQ=255)                                                                                                                                         |                                                                                                                                 TGAACGTGTCCCAGCCGCCTTCACGAGCGGTACGGCTGAACTCGAGTCCGAAGAGTGTCGGTTTCGGGATCTGACTGATTCCGTTCGGGCCGCCGGTAATTTCGGTGTTATTGAGCAGCAATATGCGCACAATTTCGCCGAAACCGAGGGTAACGATCGCCAGATAGTCACCGCGC‑AAACGCAGCACCGGAAAACCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGT  >  NC_000913/3594739‑3595002

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑