Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,595,056	T→C	Y142C (TAC→TGC)	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	3,595,056	0	T	C	100.0%	61.7 / NA	19	Y142C (TAC→TGC)	livM	branched chain amino acid/phenylalanine ABC transporter membrane subunit LivM
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (9/10);  total (9/10)

CGGAAAA‑CCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCC‑AGAAGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAACCATAAACGGCCACGCCACCGCAAGCACC  >  NC_000913/3594926‑3595190                                                                                                                                      |                                                                                                                                       cGGAAAACCCGAGAAGGAACCCCCCCCCCGCTCCCATAAATCAAGAAACCGGCAGGCGGGTCC‑AGAACCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCccagc                                                                                                                                <  2:310990/140‑1 (MQ=255)                gaagcccccccccCGCTGCAATTACCCCAGAACGCGGCGGGCGGGT‑C‑AAAAGCCCAAAGCCGTAATAGTGATGGAGCAGCGAAAAAGTGTAAGCGCGGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGaa                                                                                                                 <  2:243375/135‑1 (MQ=255)                    gCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCC‑AGAAGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGAc                                                                                                             >  2:504547/1‑140 (MQ=255)                       cgcccccgcTGCCATTAATCCAGCAATCGGCAGGCAGGTCC‑AGAAGCCC‑AAGCCGTAATAGTCATTGAGCAGCGCAAAAGCGAAAGCGCCGATGGCGTAAAAACCGACGCAACCCAGCACCAGCAGACCAGAAAGACcaa                                                                                                          >  2:119295/1‑140 (MQ=255)                            ccgccgCAATTACTCAAGCAAGGGGGGGGGGGGTCA‑GGAGGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGAGGGCTTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAAcc                                                                                                     <  2:451659/140‑1 (MQ=255)                                  ccATTAAACCCAGAAACGGGAGGGAGGGCCAAGAACCCA‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGtt                                                                                                <  2:432072/140‑1 (MQ=255)                                                  cGGGAGGCAGGCCA‑AGAACCCA‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGa                                                                               <  2:3531/140‑1 (MQ=255)                                                  cGGCAGGCAGGTCC‑AGAAGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGa                                                                               <  1:701862/140‑1 (MQ=255)                                                                   aaGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGt                                                               <  2:323023/140‑1 (MQ=255)                                                                       cc‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAgg                                                           >  2:183673/1‑140 (MQ=255)                                                                           aGCCGAAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTg                                                        <  2:544889/140‑1 (MQ=255)                                                                              cGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCa                                                     <  1:504547/140‑1 (MQ=255)                                                                                   tAGTGATTGAGCAGCGCAAAAGTGTAAGCGCTGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATc                                                >  1:393757/1‑140 (MQ=255)                                                                                        aTTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCg                                           >  2:745489/1‑140 (MQ=255)                                                                                           gAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTcc                                        >  1:390611/1‑140 (MQ=255)                                                                                                 cgcAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTg                                  >  1:230756/1‑140 (MQ=255)                                                                                                 cgcAAAAGTGTAAGCGCCGATGGCGAAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTg                                  <  2:334308/140‑1 (MQ=255)                                                                                                  gcAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGa                                 >  1:279375/1‑140 (MQ=255)                                                                                                      aaGTGTAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAAcc                             >  2:885257/1‑140 (MQ=255)                                                                                                           tAAGCGCCGATGGCGTAAAAACCGCCGCACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAACCATaaa                        >  1:403717/1‑140 (MQ=255)                                                                                                                                 cgccgcACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAACCATAAACGGCCACGCCACCGCAAGCAcc  >  1:324097/1‑140 (MQ=255)                                                                                                                                 cgccgcACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAACCATAAACGGCCACGCCACCGCAAGCAcc  >  2:836408/1‑140 (MQ=255)                                                                                                                                      |                                                                                                                                       CGGAAAA‑CCGAGCAGGAAGCCCGCCGCCGCTGCCATTAATCCAGCAATCGGCAGGCAGGTCC‑AGAAGCCC‑AAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACCGTCCCGCGTGAAACCATAAACGGCCACGCCACCGCAAGCACC  >  NC_000913/3594926‑3595190

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑