Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	340,444	(A)5→4	coding (558/816 nt)	BW25113_RS01680 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	340,440	0	A	.	100.0%	247.4 / NA	59	coding (554/816 nt)	BW25113_RS01680	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (33/26);  total (33/26)

ATTGCAAATGTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGGAAAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGATTATTATTACACTT  >  NZ_CP009273/340362‑340524                                                                               |                                                                                     aTTGCAAATGTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTcg                                                                          >  1:324090/1‑90 (MQ=255)    gCAAATGTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGa                                                                       <  2:384992/90‑1 (MQ=255)        aTGTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATg                                                                   <  1:883806/90‑1 (MQ=255)          gTATTCTTCTTGAATAGCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtc                                                                 >  2:524535/1‑90 (MQ=255)          gTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtc                                                                 >  1:654786/1‑90 (MQ=255)          gTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtc                                                                 >  2:74204/1‑90 (MQ=255)                    tGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCg                                                       >  2:586202/1‑90 (MQ=255)                    tGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCg                                                       >  2:76281/1‑90 (MQ=255)                    tGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCg                                                       >  1:457705/1‑90 (MQ=255)                      aaTACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGga                                                     >  1:893555/1‑90 (MQ=255)                            atatGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGagacaga                                               >  2:115549/1‑90 (MQ=255)                            atatGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGagacaga                                               >  1:41908/1‑90 (MQ=255)                                gCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGAcgcg                                           <  2:735111/90‑1 (MQ=255)                                gCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGAcgcg                                           <  1:577827/90‑1 (MQ=255)                                 ccTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACgcgc                                          >  1:862616/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtcgtc                                                              >  2:757672/1‑67 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtcgtc                                                              <  1:757672/67‑1 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGAcgcg                                           <  2:793552/86‑1 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGAcgcg                                           >  1:793552/1‑86 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  2:212466/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  1:778853/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  2:361916/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  1:7964/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  1:833919/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  1:450928/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  2:57595/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  2:692284/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  2:757991/1‑90 (MQ=255)                                    ttGCTGAGAATTTTCCCTAAAGGGAAAGAGGGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCa                                       >  1:406406/1‑90 (MQ=255)                                                ttCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGagac                                                  <  2:23089/67‑1 (MQ=255)                                                ttCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGagac                                                  >  1:23089/1‑67 (MQ=255)                                                ttCCCTAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGgcgc                           >  1:81681/1‑90 (MQ=255)                                                     tAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtcg                                                                <  2:180909/48‑1 (MQ=255)                                                     tAAAGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATgtcg                                                                >  1:180909/1‑48 (MQ=255)                                                       aaGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCa                    >  1:767920/1‑90 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCTAAATGTCGTCTATTCCGGAGACTGCCGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  2:575938/90‑1 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  1:140351/90‑1 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  1:18751/90‑1 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  2:574990/90‑1 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  2:893555/90‑1 (MQ=255)                                                        aGGGAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  2:406406/90‑1 (MQ=255)                                                         gggAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATg                  <  1:524535/90‑1 (MQ=255)                                                           gAAAGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCCCCAATTCAGCACGCGCTTGCGCATGGa                <  2:196136/90‑1 (MQ=255)                                                            aaaGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGat               >  2:513665/1‑90 (MQ=255)                                                             aaGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              <  1:361916/90‑1 (MQ=255)                                                             aaGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              <  2:778853/90‑1 (MQ=255)                                                             aaGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              <  1:287737/90‑1 (MQ=255)                                                             aaGAGTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              <  1:745823/90‑1 (MQ=255)                                                                agTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   >  2:896869/1‑82 (MQ=255)                                                                agTGTATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCAt                   <  1:896869/82‑1 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGattattatt        >  2:147997/1‑90 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGattattatt        >  2:137063/1‑90 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGattattatt        <  2:81681/90‑1 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGattattatt        >  1:516098/1‑90 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGAAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              <  2:719055/84‑1 (MQ=255)                                                                   gtATGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGAAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGatt              >  1:719055/1‑84 (MQ=255)                                                                     aTGCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGATTATTATTac      <  1:74204/90‑1 (MQ=255)                                                                       gCATGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGATTATTATTacac    <  1:115549/90‑1 (MQ=255)                                                                         aTGTGG‑AAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGATTATTATTACACtt  <  2:506517/90‑1 (MQ=255)                                                                               |                                                                                     ATTGCAAATGTATTCTTCTTGAATACCATATGCCTTTGCTGAGAATTTTCCCTAAAGGGAAAGAGTGTATGCATGTGGAAAAATGGCTTCGCGAAATGTCGTCTATTCCGGAGACAGACGCGCCCATTAAGCAGGCGCTTGCGCATGGATTATTATTACACTT  >  NZ_CP009273/340362‑340524

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑