Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,778,934	(T)6→5	intergenic (‑564/+187)	BW25113_RS25705 ← / ← BW25113_RS13825	DUF5507 domain‑containing protein/tRNA‑Ile

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,778,929	0	T	.	100.0%	119.9 / NA	29	intergenic (‑559/+192)	BW25113_RS25705/BW25113_RS13825	DUF5507 domain‑containing protein/tRNA‑Ile
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (16/13);  total (16/13)

AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACG  >  NZ_CP009273/2778841‑2778989                                                                                         |                                                             aGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtt                                                             >  2:374406/1‑90 (MQ=255)     gTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAACTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtttttc                                                         >  1:325063/1‑89 (MQ=255)      tataATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtttttcc                                                        >  2:377944/1‑88 (MQ=255)             aaTGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACt                                                >  1:230705/1‑90 (MQ=255)              aTGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGACA‑TTTTTCCAGGTACtt                                               >  2:350673/1‑90 (MQ=255)               tGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGGACttt                                              >  2:334129/1‑90 (MQ=255)                      aCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGa                                       >  1:89904/1‑90 (MQ=255)                       ctctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAg                                      >  2:415027/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                    >  2:387682/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                    >  1:36125/1‑90 (MQ=255)                          tGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTAc                                   >  2:179299/1‑90 (MQ=255)                           ggCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACt                                  >  1:1/1‑90 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                          <  1:415027/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                          <  2:38665/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                          <  2:36125/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                          <  1:113223/90‑1 (MQ=255)                                   cGTTAATTACTTAACTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                          <  2:325063/90‑1 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     <  1:387682/90‑1 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     <  1:374406/90‑1 (MQ=255)                                              tAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACtt                                               <  1:101001/58‑1 (MQ=255)                                              tAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACtt                                               >  2:101001/1‑58 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                               >  1:415666/1‑67 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                               <  2:415666/67‑1 (MQ=255)                                                          tAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGcc     >  1:497548/1‑88 (MQ=255)                                                          tAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGcc     <  2:497548/88‑1 (MQ=255)                                                           aaGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACg  >  2:266822/1‑90 (MQ=255)                                                                        gCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     >  2:364620/1‑58 (MQ=255)                                                                        gCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     <  1:364620/58‑1 (MQ=255)                                                                                  gCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTg                                 >  1:53501/1‑36 (MQ=37)                                                                                  gCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTg                                 <  2:53501/36‑1 (MQ=37)                                                                                   cAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     >  1:495940/1‑47 (MQ=39)                                                                                   cAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                     <  2:495940/47‑1 (MQ=39)                                                                                         |                                                             AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACG  >  NZ_CP009273/2778841‑2778989

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑