Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,278,738	C→T	T341T (ACG→ACA)	bcr ←	multidrug efflux pump Bcr

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,278,738	0	C	T	100.0%	88.6 / NA	26	T341T (ACG→ACA)	bcr	multidrug efflux pump Bcr
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/2);  total (24/2)

AGAAGAGAATGGAGCTGGTTGCGCAGAATGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCCGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAGCGCACTGA  >  NC_000913/2278602‑2278868                                                                                                                                          |                                                                                                                                   agaagaGAATGGAGCTGGTTGCGCAGAATGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGtt                                                                                                                                 >  1:667558/1‑140 (MQ=255)  gaagaGAATGGAGCTGGTTGCGCAGAATGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTc                                                                                                                                >  1:277320/1‑140 (MQ=255)        aaTGGGGCTGGTTGCGAAGAATGCAATTGACCAAATCACCGGCCATGCAGAGTAAAAGGTCGCAAGAGAAAGCAATGCCCCAACATTTGCCCCTATGCAAAAAGGGAAGGTC‑CCTGCCAGCGAAGATGCTGTTCCCGCCa                                                                                                                          <  2:611524/140‑1 (MQ=255)             aGCTGGTTGCGCAGAATGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATgg                                                                                                                     >  1:532064/1‑140 (MQ=255)                  gTTGCGAAGAATGCAATTAACAAAACCATCGGCCATGCAGAGTAAAAGGTCGCAAGAAAAAGCAATGCCCCAACAATTCCCCCTATGCCAAAAGGGAAGTTC‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGaaa                                                                                                                <  2:931905/140‑1 (MQ=255)                            aTGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGa                                                                                                      >  1:278725/1‑140 (MQ=255)                                       cagaccatcGCCCATGCAGAGTAAAAGGTCGAAAGAGAAAGCAATGCGCCAACAATTCCCCCTATGCCAAAACGGAAGGTC‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCAt                                                                                           <  2:307417/135‑1 (MQ=255)                                       aaaaTCATCGGCCATGCAGAGTAAAAGGTCGAAAGAGAAAGCAATGCCCAAACATTTCCCCCTATGCAAAAAGGGAAGGTC‑CCTGCCAGCGAAGATGTTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCAt                                                                                           <  2:278725/139‑1 (MQ=255)                                           tctgcGGCCATGAAGAGTTAAGGGGCGAAAGAAAAAGCAATGCCCAAAAATTTCCCCCTAGCCAAAAACGGAAGGTC‑CCGGCCAGCAAAGATGCTGTCCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCa                                                                                       <  2:667558/136‑1 (MQ=255)                                           agacgggCCATGCAGATTAAAGGGTCGAAAGAAAAAGCAATGCGCCAACAATCGCCCCTATCCAAAAAGGGAAGTTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCa                                                                                       <  2:301327/135‑1 (MQ=255)                                              tcGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTg                                                                                    >  1:981618/1‑140 (MQ=255)                                                ggCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGa                                                                                  >  2:437208/1‑140 (MQ=255)                                                 gCCATGCAGAGTAAAAGGCCGAAAGAAAAAGAAAGGCCCAAACATTTCCCCCTATCCAAAAGGGGAAGTTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGAt                                                                                 <  2:868530/140‑1 (MQ=255)                                                    aTGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGACGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGac                                                                              >  2:512377/1‑140 (MQ=255)                                                     tGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATgctg                                                                             >  1:307417/1‑137 (MQ=255)                                                            ttAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACAcctgtct                                                                      >  1:301327/1‑135 (MQ=255)                                                            ttAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGa                                                                      >  1:278987/1‑140 (MQ=255)                                                                aGGCCGAAAGAAAAAGCAATGCGCAAACAATTCCCCCTATCCCAAAGGGGAAGGTT‑CCTGCCAGCAAAGATGCTGTCCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACg                                                                  <  2:157283/140‑1 (MQ=255)                                                                 ggacgaaaGAGAAAGAAAGGCGCAAAAACTCGCCCCTATGCAAAAAGGGAGGGTC‑CCTGCCAGCAAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGc                                                                 <  2:769831/134‑1 (MQ=255)                                                                    cGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGc                                                              >  2:141183/1‑140 (MQ=255)                                                                    cGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTCCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGc                                                              >  2:779072/1‑140 (MQ=255)                                                                      cAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGccc                                                            >  1:345392/1‑140 (MQ=255)                                                                         gaaaaaGCAAGGCCCCAACATTTCCCCCTA‑CCCAAAAAGGGAGGTTCCCGGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCcaca                                                         <  2:278987/137‑1 (MQ=255)                                                                                aaaggccccAAAAATTGCCCCTATCCCAAAGCGGAAGTTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAAcgccg                                                  <  2:532064/133‑1 (MQ=255)                                                                                   tGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCaa                                               >  2:770267/1‑140 (MQ=255)                                                                                     cgcCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAAcc                                             >  2:140713/1‑139 (MQ=255)                                                                                                 ccccTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGcc                                           >  2:28843/1‑130 (MQ=255)                                                                                                 ccccTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGcc                                           <  1:28843/130‑1 (MQ=255)                                                                                                    cTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGAc                              >  2:852375/1‑140 (MQ=255)                                                                                                      aTGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCa                            >  2:33655/1‑140 (MQ=255)                                                                                                           aaaaCGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATc                       <  1:852375/140‑1 (MQ=255)                                                                                                             aaCGGAAGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATccc                     <  1:33655/140‑1 (MQ=255)                                                                                                                ggAAGTTC‑CCTGCCAGCAAAGATGCTGTCCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagc                  <  2:847959/140‑1 (MQ=255)                                                                                                                  aaGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccc                >  1:581307/1‑140 (MQ=255)                                                                                                                  aaGGTT‑CCTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATAGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccc                >  1:860895/1‑140 (MQ=255)                                                                                                                         ccTGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCcagcag          >  2:671061/1‑140 (MQ=255)                                                                                                                          ctaccAGAGAGGAGGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCagcagc         <  2:345392/137‑1 (MQ=255)                                                                                                                           tGCCAGCGAGGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAgcg        <  1:512377/140‑1 (MQ=255)                                                                                                                           tGCCAGCGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAgcg        <  1:671061/140‑1 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccccag             <  2:134536/129‑1 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccccag             >  1:134536/1‑129 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccc                <  1:912766/126‑1 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATcccagccc                >  2:912766/1‑126 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAGCGCACtga  >  1:786496/1‑140 (MQ=255)                                                                                                                                 cGAAGATGCTGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAGCGCACtga  <  2:786496/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                   AGAAGAGAATGGAGCTGGTTGCGCAGAATGCAATTGACCAAATCATCGGCCATGCAGAGTTAAAGGTCGCAAGAGAAAGCAATGCGCCAACAATTGCCCCTATGCCAAAACGGAAGGTT‑CCTGCCAGCGAAGATGCCGTTCCCGCCATATGGGGAAACTCATCAAGAATGACCGCCATCGCATTGGATGACACCATCGACACGCAGCCCACAAACGCCGCAACGCCAACCACCAGCGACCAAAATCCCAGCCCCAGCAGCGCACTGA  >  NC_000913/2278602‑2278868

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑