Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,632,437	(T)7→6	intergenic (‑71/+8)	BW25113_RS08135 ← / ← BW25113_RS25620	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,632,431	0	T	.	100.0%	238.6 / NA	54	intergenic (‑65/+14)	BW25113_RS08135/BW25113_RS25620	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (22/32);  total (22/32)

TTCGCCATTTGGATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCT  >  NZ_CP009273/1632343‑1632506                                                                                         |                                                                            ttCGCCATTTGGATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGAtt                                                                            >  1:2730954/1‑90 (MQ=255)  tCGCCATTTGGATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGAttt                                                                           >  2:2724976/1‑90 (MQ=255)        tttGGATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGAttttttcat                                                                     <  2:2733359/90‑4 (MQ=255)           ggATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  2:3003822/90‑1 (MQ=255)           ggATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  2:710923/90‑1 (MQ=255)           ggATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  1:381694/90‑1 (MQ=255)           ggATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  1:2048904/90‑1 (MQ=255)           ggATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  1:1935259/90‑1 (MQ=255)                 tCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTAcc                                                           <  1:27079/90‑1 (MQ=255)                   aCGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:1910772/90‑1 (MQ=255)                   aCGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:1282067/90‑1 (MQ=255)                   aCGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  1:2116472/90‑1 (MQ=255)                   aCGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:2353426/90‑1 (MQ=255)                   aCGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:945637/90‑1 (MQ=255)                    cGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgta                                                        >  1:1624251/1‑90 (MQ=255)                    cGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgta                                                        >  1:74583/1‑90 (MQ=255)                     gCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtag                                                       <  2:2730954/90‑1 (MQ=255)                     gCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtag                                                       >  1:1507775/1‑90 (MQ=255)                     gCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtag                                                       <  1:3007031/90‑1 (MQ=255)                       atgatgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtagta                                                     <  1:1173431/90‑1 (MQ=255)                         gatgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtagt                                                      <  1:2396171/87‑1 (MQ=255)                         gatgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgtagt                                                      >  2:2396171/1‑87 (MQ=255)                         gatgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAATTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTAtg                                                   >  2:2240378/1‑90 (MQ=255)                          atgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTAtgt                                                  <  2:1507775/90‑1 (MQ=255)                          atgGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTAtgt                                                  >  1:2470291/1‑90 (MQ=255)                               gtTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTGCCGTAGTATGTGAGTa                                             <  2:1330444/90‑1 (MQ=255)                               gtTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTa                                             >  1:359249/1‑90 (MQ=255)                               gtTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTa                                             <  2:2470291/90‑1 (MQ=255)                                ttAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTTTGTGAGTAt                                            >  1:607110/1‑90 (MQ=255)                                 tAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATc                                           <  1:2034488/90‑1 (MQ=255)                                  aaCTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATcc                                          >  1:1193402/1‑90 (MQ=255)                                   aCTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCa                                         <  1:2075570/90‑1 (MQ=255)                                    cTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCAt                                        >  1:972161/1‑90 (MQ=255)                                     tCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATc                                       <  1:255425/90‑1 (MQ=255)                                       cAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTAc                                                            <  2:1629491/67‑1 (MQ=255)                                       cAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTAc                                                            >  1:1629491/1‑67 (MQ=255)                                       cAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGa                                     >  1:2920781/1‑90 (MQ=255)                                       cAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGa                                     >  1:268922/1‑90 (MQ=255)                                         gTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAAt                                   >  2:1758867/1‑90 (MQ=255)                                             tCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGac                               >  2:1609917/1‑90 (MQ=255)                                               gCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGacac                             <  2:409721/90‑1 (MQ=255)                                                 tGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCa                           <  1:2240378/90‑1 (MQ=255)                                                       tACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGt                                                               <  2:1988490/48‑1 (MQ=255)                                                       tACCACTGCTGGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGt                                                               >  1:1988490/1‑48 (MQ=255)                                                            ctgctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGc                <  2:599651/90‑1 (MQ=255)                                                             tgctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCg                                      >  2:1030556/1‑67 (MQ=255)                                                             tgctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCg                                      <  1:1030556/67‑1 (MQ=255)                                                              gctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 >  1:2734443/1‑39 (MQ=38)                                                              gctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCatgat                                                                 <  2:2734443/39‑1 (MQ=38)                                                              gctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:1081829/47‑1 (MQ=39)                                                              gctgGTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         >  1:1081829/1‑47 (MQ=39)                                                                  gTTCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGCGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGa          >  2:2286894/1‑90 (MQ=255)                                                                   ttCAGAGTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGaa         <  2:972161/90‑1 (MQ=255)                                                                      agagTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGa      >  2:2627431/1‑90 (MQ=255)                                                                        agTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         <  2:1051149/37‑1 (MQ=37)                                                                        agTTAAAAAAACTATGA‑TTTTTTCATGATGTTACCgt                                                         >  1:1051149/1‑37 (MQ=37)                                                                          ttAAAAAAACTATGA‑TTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCt  <  2:2348960/90‑1 (MQ=255)                                                                                         |                                                                            TTCGCCATTTGGATATTCACGCATGATGGTGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATGATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCT  >  NZ_CP009273/1632343‑1632506

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑