Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,812,082	T→C	I219T (ATC→ACC)	emrA →	multidrug efflux pump membrane fusion protein EmrA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,812,082	0	T	C	100.0%	77.0 / NA	22	I219T (ATC→ACC)	emrA	multidrug efflux pump membrane fusion protein EmrA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (11/11);  total (11/11)

TACAATGCCAATCAGGCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTATCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCA  >  NC_000913/2811967‑2812211                                                                                                                    |                                                                                                                                  ttcaatGCCAAACAGGGGAATATTTTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGtt                                                                                                                  <  1:309420/131‑1 (MQ=255)           aTCAGGCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCccg                                                                                                        >  2:586135/1‑133 (MQ=255)           aTCAGGCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCccg                                                                                                        >  2:407017/1‑133 (MQ=255)           aTCAGGCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCccg                                                                                                        <  2:134376/133‑1 (MQ=255)                gCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCcgcg                                                                                                   >  2:423739/1‑133 (MQ=255)                gCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCcgcg                                                                                                   >  2:17850/1‑133 (MQ=255)                   atgatTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCTTATTACCATTCCCAAGTCCGGTTATTTCTCCAGCcgcgccg                                                                                                >  2:303944/1‑131 (MQ=255)                     gtttCTGGGGGCTAATCTGGAAGTGCTGCCAGTCGTGCAACTGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTa                                                                                              <  2:287326/131‑1 (MQ=255)                                cTAAACTGGAAGATCAGCCAGCCGGGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGgc                                                                                   >  2:415664/1‑133 (MQ=255)                                             tCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCa                                                                      >  1:582930/1‑133 (MQ=255)                                             tCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCa                                                                      >  2:529718/1‑133 (MQ=255)                                                gccagccGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAacg                                                                   >  1:365875/1‑133 (MQ=255)                                                                   gCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCg                                                <  2:327043/133‑1 (MQ=255)                                                                         gAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAg                                          <  1:17850/133‑1 (MQ=255)                                                                         gAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAg                                          <  1:423739/133‑1 (MQ=255)                                                                         gAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAg                                          <  1:415664/133‑1 (MQ=255)                                                                          aaGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGc                                         >  2:593821/1‑133 (MQ=255)                                                                             tACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGccac                                      <  1:409598/133‑1 (MQ=255)                                                                                                gcTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGcc                   <  1:529718/133‑1 (MQ=255)                                                                                                gcTGGAGCGTACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGcc                   <  2:365875/133‑1 (MQ=255)                                                                                                         tACTCGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTaaa          >  2:87628/1‑133 (MQ=255)                                                                                                             cGTATTACCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAgaga      <  1:87628/133‑1 (MQ=255)                                                                                                                 ttacCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCa  <  1:55600/133‑1 (MQ=255)                                                                                                                 ttacCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCa  >  2:55600/1‑133 (MQ=255)                                                                                                                    |                                                                                                                                  TACAATGCCAATCAGGCGATGATTCTGGGGACTAAACTGGAAGATCAGCCAGCCGTGCAACAGGCTGCCACCGAAGTACGTAACGCCTGGCTGGCGCTGGAGCGTACTCGTATTATCAGTCCGATGACCGGTTATGTCTCCCGCCGCGCGGTACAGCCTGGGGCGCAAATTAGCCCAACGACGCCGCTGATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCA  >  NC_000913/2811967‑2812211

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑