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%	153.1 / NA	34	intergenic (+19/‑96)	thrT/tufB	tRNA‑Thr/translation elongation factor Tu 2
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (15/19);  total (15/19)

GTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGTTTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATCC  >  NC_000913/4175768‑4175923                                                                                 |                                                                            gTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGt                                                                             <  2:778708/81‑1 (MQ=255) gTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGt                                                                             <  1:778709/81‑1 (MQ=255) gTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGt                                                                             >  1:778760/1‑81 (MQ=255)  ttGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtt                                                                            >  1:778751/1‑81 (MQ=255)      tAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttttc                                                                        >  2:778769/1‑80 (MQ=255)       agagCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCTGCACCACTTCTTTTCTCCTCCCTGtttttcc                                                                       >  2:778764/1‑79 (MQ=255)        gagCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttttcct                                                                      <  2:778710/81‑4 (MQ=255)         agCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttttcctt                                                                     <  1:778711/81‑5 (MQ=255)         agCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGtttttcctt                                                                     <  1:778712/81‑5 (MQ=255)           cgcACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCt                                                                  <  1:778713/81‑1 (MQ=255)                    ggTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTg                                                          >  2:778753/1‑80 (MQ=255)                      tAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCAt                                                       <  1:778714/81‑1 (MQ=255)                        aGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCAtt                                                      <  1:778717/80‑1 (MQ=255)                        aGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCAtt                                                      <  2:778718/80‑1 (MQ=255)                        aGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTc                                                     <  1:778716/81‑1 (MQ=255)                        aGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTc                                                     <  2:778715/81‑1 (MQ=255)                            tGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTcaaca                                                 <  1:778719/81‑1 (MQ=255)                               ggTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGt                                              >  2:778773/1‑81 (MQ=255)                                gTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTc                                             <  2:778720/81‑1 (MQ=255)                                gTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTc                                             <  2:778721/81‑1 (MQ=255)                                   ggCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCggg                                          >  1:778757/1‑81 (MQ=255)                                      aGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCAt                                       <  1:778722/81‑1 (MQ=255)                                       gTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATg                                      >  2:778762/1‑81 (MQ=255)                                       gTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATg                                      <  2:778723/81‑1 (MQ=255)                                        ttCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGt                                     >  1:778775/1‑81 (MQ=255)                                          cGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGtt                                    <  1:778724/80‑1 (MQ=255)                                          cGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGtt                                    <  1:778725/80‑1 (MQ=255)                                           gAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGc                                  <  1:778726/81‑1 (MQ=255)                                             aTCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCt                                >  1:778771/1‑81 (MQ=255)                                             aTCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCt                                >  2:778761/1‑81 (MQ=255)                                                 gCCTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGtt                            >  1:778765/1‑81 (MQ=255)                                                  ccTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTg                               <  2:778727/77‑1 (MQ=255)                                                  ccTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGt                             <  2:778728/79‑1 (MQ=255)                                                   cTATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGa                          >  1:778768/1‑81 (MQ=255)                                                    tATCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAt                         >  1:778772/1‑81 (MQ=255)                                                      tCAGCACCACTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGAt                         <  2:801858/79‑1 (MQ=255)                                                           accacTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGa                  >  1:778758/1‑81 (MQ=255)                                                            ccacTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGat                 <  2:778729/81‑1 (MQ=255)                                                             cacTTCTTTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGata                >  1:778763/1‑81 (MQ=255)                                                               cttcttTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATc              <  1:778730/81‑1 (MQ=255)                                                                  cttTTCTCCTCCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCAcc           >  2:778782/1‑81 (MQ=255)                                                                       ctcctcCCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGAtt       >  1:778821/1‑80 (MQ=255)                                                                           tccCTG‑TTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATcc  >  1:778770/1‑81 (MQ=255)                                                                                 |                                                                            GTTGGTAGAGCGCACCCTTGGTAAGGGTGAGGTCGGCAGTTCGAATCTGCCTATCAGCACCACTTCTTTTCTCCTCCCTGTTTTTTCCTTCTGTTTATTGCATTCAACAAGTCGGGCATGTTGCCTGGTTGATGTGGTGATATCACCGATTTATCC  >  NC_000913/4175768‑4175923

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑