Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,593,123	(A)7→8	coding (315/714 nt)	livF ←	branched‑chain amino acid ABC transporter ATPase

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_000913	3,593,116	1	.→A	100.0%	108.5	34	coding (322/714 nt)	livF	branched‑chain amino acid ABC transporter ATPase
Reads supporting (aligned to +/- strand):  new base (18/12):  ref base (2/2):  total (20/14)

TTTGCTGGATGATAATCGGCGCAAGACCGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑C‑AAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCAAGGTGGTTTTCCC  >  NC_000913/3592912‑3593311                                                                                                                                                                                                               |                                                                                                                                                                                                       tttGCTGGATGATAATCGGCGCAAGACAGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCCGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCCCATGCAGACGTGGCAACCGCTCAGACACCCACTTTATGCCCTCCTGGTACTGGTCGCGTACAG‑C‑caaga                                                                                                                                                                                                   >  2:182107/1‑208 (MQ=255)     cTGGATGATAATCGGCGCAAGACCGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑C‑aaaaa‑a‑aac                                                                                                                                                                                             <  1:303758/210‑3 (MQ=255)      tGGATGATAATCGGCGCAAGACCGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑C‑aaaaa‑a‑aacc                                                                                                                                                                                            <  1:41437/210‑4 (MQ=255)                          cacGAGCGATGGCTCATCAGGAAGTAGCCAGCGCGGGTTGCTCAGCAGCGCCCGACCAATAGCCAGCAGCTGCTGTTCACCGCCGGACATCGTGCCCGCCCGCTGAATACGGGGCTCATGCAGACGTGGAAACAGGTCGTACACCCACTTGATGCGCTGCTGTAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCtt                                                                                                                                                                        <  2:64843/208‑1 (MQ=255)                          aCCGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGCATACGGCGCTCATGCAGACGTGGAAACAGCTCATACAACCACTTTATGCGCTCCTGGAACTGGTCGGGTTCAG‑CAAAAAA‑A‑A‑CCGCCCCCCGCCAGGTCCCCtt                                                                                                                                                                        >  2:370639/1‑210 (MQ=255)                           ccGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACCTTATGCGCTCCTGGAACTTGTCGCGTTCAG‑C‑AAAAACA‑A‑CCGCCCATCGCCCGGTTCTCTTc                                                                                                                                                                       >  2:335718/1‑210 (MQ=255)                                        catcaAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTTCCCGCCCGCTGAATACGGCGCCCATGCAGCCGGGGAAACAGCTCATACACCCACTTTATGCGCCCCTGGAACTGGGCGCGTCCGGCC‑AAAAA‑A‑A‑CCCCCCATCGCCAGGTTCCCTTCCCCCGTCATCcgc                                                                                                                                                          >  1:326530/1‑210 (MQ=255)                                                         cgcgGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGccc                                                                                                                                         >  1:204685/1‑210 (MQ=255)                                                                tGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCggg                                                                                                                                  <  2:2602/210‑1 (MQ=255)                                                                         gcgcACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGcc                                                                                                                         >  2:32614/1‑210 (MQ=255)                                                                           gcACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCCCCGTCATCCGCGAGCAGACGCGCCGCCCTTCCGGGACAATCGCCAc                                                                                                                       >  2:97507/1‑210 (MQ=255)                                                                                aCCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCCTCCGGGCCAATCGCCACCGCtc                                                                                                                  >  2:387570/1‑209 (MQ=255)                                                                                  cAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTcg                                                                                                                >  1:449182/1‑210 (MQ=255)                                                                                      cGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCa                                                                                                            >  1:420390/1‑210 (MQ=255)                                                                                                tgctgTTCACCGGCGGACATGGTGCCCGCCCGCTGCATACGGCGGTCCAGCCGACGTGGAAACAGCTCATACACCCCCTTCCTGCGCTCCTGGCACTGGTCGCGTTCAG‑C‑AAAAA‑ACA‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCga                                                                                                  <  2:326508/210‑2 (MQ=255)                                                                                                      tCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCAGGATTTCCCCTGTCTg                                                                                            >  1:118371/1‑210 (MQ=255)                                                                                                              ggACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCgg                                                                                    <  1:32616/210‑1 (MQ=255)                                                                                                                 cATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCGGTCGGAaa                                                                                 >  1:64636/1‑210 (MQ=255)                                                                                                                        cccgcccgCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCttt                                                                          >  2:294911/1‑210 (MQ=255)                                                                                                                         ccgcccggTGAATACGGCGCTCATGCCGACGTGGAAACAGCTCATAAGCCCGCTTGATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTa                                                                         <  2:309329/210‑1 (MQ=255)                                                                                                                         ccgcccgcTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCATCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTa                                                                         >  2:485827/1‑210 (MQ=255)                                                                                                                                    aTACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTCTCATCAAccac                                                              >  2:439989/1‑210 (MQ=255)                                                                                                                                              cATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCCTCAAACCCAATTCCccct                                                    >  1:159295/1‑209 (MQ=255)                                                                                                                                                tGCAGAGGTCGAAACGCCTCATACACCGACTGTAACCGCCCCGGCACCTGCTAGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCAACGGTCATCCCGGAAAAGACGCGACGCCCTGCCGGGAAAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCt                                                  <  2:62009/210‑1 (MQ=255)                                                                                                                                                 gCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTTCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCAGCAAACACAATTCGCCCGCtg                                                 >  1:106669/1‑210 (MQ=255)                                                                                                                                                               aGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATc                                   <  2:370899/210‑1 (MQ=255)                                                                                                                                                                  tCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATcgcc                                >  2:223683/1‑210 (MQ=255)                                                                                                                                                                   cATAAACCCCCTTTTTGCGCTCCCGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATcgccg                               <  1:294927/210‑1 (MQ=255)                                                                                                                                                                      acacCCCCTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCAt                            <  2:204675/210‑1 (MQ=255)                                                                                                                                                                              tttATGCTCTCCTGGAACTGGTCTCGTGCAG‑C‑AAAAA‑A‑ACCCGCCCATCGCAAGGTTCTCTTCCACCGTCTTCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGACACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGcc                    <  1:258267/210‑1 (MQ=255)                                                                                                                                                                                 aTGCGCTCCTAGACCTCGTCGCGTTAAG‑CAAAAAA‑A‑A‑CCGCCCACCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAg                 <  2:225866/210‑1 (MQ=255)                                                                                                                                                                                   gcgcTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCa               >  1:137897/1‑210 (MQ=255)                                                                                                                                                                                    cgcTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCaa              >  2:184803/1‑210 (MQ=255)                                                                                                                                                                                    cgcTCCTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCaa              <  1:370662/210‑1 (MQ=255)                                                                                                                                                                                         cTGGAACTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCCCGCGGATCGCCGCCTAACGGTCCGAGCAGggtgg         >  1:331336/1‑210 (MQ=255)                                                                                                                                                                                             aaCTGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCGCACATCGCCAGGTTCTCGTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGATTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCAAGGTGGtttt     <  1:313447/210‑1 (MQ=255)                                                                                                                                                                                                tGGTCGCGTTCAG‑CAAAAAA‑A‑A‑CCCCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCAAGGTGGTTTTccc  <  1:59544/210‑1 (MQ=255)                                                                                                                                                                                                               |                                                                                                                                                                                                       TTTGCTGGATGATAATCGGCGCAAGACCGAGCGATGGCTCATCAAGCAGTAGCAAACGCGGGTTGCTCATCAGCGCACGACCAATCGCCAGCATCTGCTGTTCACCGCCGGACATGGTGCCCGCCCGCTGAATACGGCGCTCATGCAGACGTGGAAACAGCTCATACACCCACTTTATGCGCTCCTGGAACTGGTCGCGTTCAG‑C‑AAAAA‑A‑A‑CCGCCCATCGCCAGGTTCTCTTCCACCGTCATCCGCGAGAAGACGCGACGCCCTTCCGGGACAATCGCCACCGCTTCGCGCATGATTTTCGCTGTCTGCCAGTCGGTAATGTCTTTATCATCAAACACAATTCGCCCGCTGGTGGCACGCGGATCGCCGCATAACGTGCCGAGCAAGGTGGTTTTCCC  >  NC_000913/3592912‑3593311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.