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%	209.6 / NA	50	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 . (32/18);  total (32/18)

AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCAGCCCT  >  NZ_CP009273/2778841‑2779007                                                                                         |                                                                               aGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtt                                                                               >  1:124136/1‑90 (MQ=255) aGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATCTGCCCGCTTGGCATAGCAGGCAtt                                                                               >  2:428861/1‑90 (MQ=255)  ggggTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAttt                                                                              <  2:192053/90‑1 (MQ=255)            aaaTGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTAc                                                                   >  2:228360/1‑90 (MQ=255)             aacgATAATACTCTGGCTTAATCGTTAATTACTTAATGCCACATGTAAGCAATTTCCCCCCTTGACATAGCAGGCA‑TTTTTCCATGTACt                                                                  >  2:33692/4‑90 (MQ=255)               tGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACttt                                                                >  1:290551/1‑90 (MQ=255)               tGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACttt                                                                >  2:82427/1‑90 (MQ=255)                   aataCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGaa                                                            <  2:443007/90‑1 (MQ=255)                     taCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATg                                                          <  1:60204/90‑1 (MQ=255)                     taCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATg                                                          <  2:838457/90‑1 (MQ=255)                        tctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGt                                                       >  2:495440/1‑90 (MQ=255)                        tctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGt                                                       >  2:785968/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGt                                                                     <  2:374049/75‑1 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGt                                                                     >  1:374049/1‑75 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGaa                                                            >  1:423969/1‑84 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGaa                                                            <  2:423969/84‑1 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  2:669623/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  2:23448/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  1:103079/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  1:555836/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  1:456670/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                      >  1:56076/1‑90 (MQ=255)                          tGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTAc                                                     <  1:869241/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 <  1:542449/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 <  2:124136/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 <  2:722818/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 <  2:578421/90‑1 (MQ=255)                               ttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATg                                                >  2:733006/1‑90 (MQ=255)                                tATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATgg                                               >  1:647639/1‑90 (MQ=255)                                tATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATgg                                               >  2:881202/1‑90 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                                            <  1:754795/90‑1 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGt                                                                     <  2:213921/63‑1 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGt                                                                     >  1:213921/1‑63 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 <  1:855484/83‑1 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                                 >  2:855484/1‑83 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                          >  1:76189/1‑90 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                          >  1:507186/1‑90 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                          >  1:124494/1‑90 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                                       <  1:655798/90‑1 (MQ=255)                                                aTTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGt                               >  2:126454/1‑90 (MQ=255)                                                    cacaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACCTTTGAATGAGTACTAATGGATAAATACATTGCAGTGGCg                           >  2:392715/1‑90 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                          >  1:595235/1‑74 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                          <  2:595235/74‑1 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGt                          >  1:307551/1‑90 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGt                          >  1:781184/1‑90 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGt                          <  1:723234/90‑1 (MQ=255)                                                     acaTGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGAACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGt                          >  2:915690/1‑90 (MQ=255)                                                        tGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGcc                       >  1:365928/1‑90 (MQ=255)                                                          tAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCAc                     >  2:625133/1‑90 (MQ=255)                                                           aaGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACg                    >  2:47004/1‑90 (MQ=255)                                                           aaGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACg                    >  2:437447/1‑90 (MQ=255)                                                            aGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGt                   <  2:647639/90‑1 (MQ=255)                                                                             gCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCAGCCCt  <  2:781184/90‑1 (MQ=255)                                                                                         |                                                                               AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCAGCCCT  >  NZ_CP009273/2778841‑2779007

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑