Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,061,342	T→A	intergenic (‑576/‑774)	BW25113_RS10415 ← / → BW25113_RS24005	IS5‑like element IS5 family transposase/TonB‑dependent receptor plug domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,061,342	0	T	A	100.0%	45.5 / NA	13	intergenic (‑576/‑774)	BW25113_RS10415/BW25113_RS24005	IS5‑like element IS5 family transposase/TonB‑dependent receptor plug domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (4/9);  total (4/9)

AAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTA  >  NZ_CP009273/2061257‑2061417                                                                                      |                                                                            aaaGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACAtt                                                                         >  1:29608/1‑90 (MQ=255)               tctcAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGaa                                                           <  2:140551/90‑1 (MQ=255)               tctcAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGaa                                                           <  2:609600/90‑1 (MQ=255)                           cATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCa                                               <  1:59110/90‑1 (MQ=255)                              tctcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGc                                            <  1:637284/90‑1 (MQ=255)                                tcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCgg                                          <  1:612504/90‑1 (MQ=255)                                                  tCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCAc                        <  1:569899/90‑1 (MQ=255)                                                    cATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt                      <  1:283119/90‑1 (MQ=255)                                                    cATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt                      <  2:650668/90‑1 (MQ=255)                                                           aTGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTtata               >  1:494971/1‑90 (MQ=255)                                                            tGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTtatat              <  1:336443/90‑1 (MQ=255)                                                                  aaaTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGGGTACCACTCGTCATCACGTATTTATATATCATg        >  2:206196/1‑90 (MQ=255)                                                                        gAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTa  >  1:545718/1‑90 (MQ=255)                                                                                      |                                                                            AAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTA  >  NZ_CP009273/2061257‑2061417

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑