Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,175,853	(T)6→5	intergenic (+24/‑91)	thrT → / → tufB	tRNA‑Thr/translation elongation factor Tu 2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,175,848	0	T	.	100.0%	120.9 / NA	27	intergenic (+19/‑96)	thrT/tufB	tRNA‑Thr/translation elongation factor Tu 2
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (12/15);  total (12/15)

GTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGTTTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATC  >  NC_000913/4175772‑4175922                                                                             |                                                                           gTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttt                                                                         <  1:779844/80‑1 (MQ=255) gTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttt                                                                         <  2:779842/80‑1 (MQ=255) gTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttt                                                                         <  1:779843/80‑1 (MQ=255)    gagCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttttcc                                                                      <  2:779845/80‑3 (MQ=255)          aCCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGtt                                                              >  1:779883/1‑81 (MQ=255)                 gTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGc                                                        <  1:779847/80‑1 (MQ=255)                 gTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCa                                                       <  1:779846/81‑1 (MQ=255)                   aaGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCAtt                                                     >  2:779890/1‑81 (MQ=255)                           ggTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGt                                             <  2:779848/81‑1 (MQ=255)                               ggCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCgg                                          <  2:779849/80‑1 (MQ=255)                                  aGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCAt                                      <  1:779850/81‑1 (MQ=255)                                   gTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATg                                     <  1:779851/81‑1 (MQ=255)                                     tCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGtt                                   >  2:779894/1‑81 (MQ=255)                                      cGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGtt                                   <  2:779852/80‑1 (MQ=255)                                      cGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTg                                  >  1:779904/1‑81 (MQ=255)                                       gAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTg                                  <  2:779853/80‑1 (MQ=255)                                        aaTCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGcc                                >  1:779902/1‑81 (MQ=255)                                               cTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGa                         >  2:779898/1‑81 (MQ=255)                                                tATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAt                        >  2:779900/1‑81 (MQ=255)                                                tATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAt                        >  2:779893/1‑81 (MQ=255)                                                  tCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAtgt                      >  2:779892/1‑81 (MQ=255)                                                  tCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAt                        <  2:779854/79‑1 (MQ=255)                                                       accacTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGa                 >  1:779887/1‑81 (MQ=255)                                                        ccacTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGa                 >  1:779896/1‑80 (MQ=255)                                                           cttcttTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATc             <  1:779855/81‑1 (MQ=255)                                                              cttTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCAcc          >  1:779909/1‑81 (MQ=255)                                                              cttTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCAc           <  2:779856/80‑1 (MQ=255)                                                                 ttCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCg         <  2:779858/79‑1 (MQ=255)                                                                 ttCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCg         <  1:779857/79‑1 (MQ=255)                                                                      ctccCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGAttt     <  2:779859/78‑1 (MQ=255)                                                                      ctccCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATc  <  1:779860/81‑1 (MQ=255)                                                                             |                                                                           GTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGTTTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATC  >  NC_000913/4175772‑4175922

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑