Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,770,090	T→C	R339R (CGT→CGC)	ydiK →	UPF0118 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,770,090	0	T	C	100.0%	137.6 / NA	39	R339R (CGT→CGC)	ydiK	UPF0118 family inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/19);  total (20/19)

TCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGTCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTAA  >  NC_000913/1769957‑1770221                                                                                                                                      |                                                                                                                                    tCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGtt                                                                                                                                >  1:1358832/1‑139 (MQ=255) tCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGtt                                                                                                                                >  2:1003402/1‑139 (MQ=255)       cAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCTGTTTCCTGGCGCCTGTTTGCcgc                                                                                                                          <  2:1253857/139‑1 (MQ=255)        aaTGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcgcg                                                                                                                         <  1:573389/139‑1 (MQ=255)                    cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  1:1138373/1‑139 (MQ=255)                    cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  1:1282404/1‑139 (MQ=255)                    cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  2:1445913/1‑139 (MQ=255)                       gggTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTc                                                                                                          <  1:1003402/139‑1 (MQ=255)                            ccGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaag                                                                                                               <  2:373007/129‑1 (MQ=255)                            ccGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaag                                                                                                               >  1:373007/1‑129 (MQ=255)                             cGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCccgccg                                                                                                    <  2:1117890/139‑1 (MQ=255)                                       cTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCgtgggt                                                                                                                    <  2:680091/113‑1 (MQ=255)                                       cTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCgtgggt                                                                                                                    >  1:680091/1‑113 (MQ=255)                                         gATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        >  1:1113081/1‑139 (MQ=255)                                             cTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCgg                                                                                    <  1:140875/139‑1 (MQ=255)                                                aTTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcg                                                                                                                           >  1:1424110/1‑97 (MQ=255)                                                aTTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcg                                                                                                                           <  2:1424110/97‑1 (MQ=255)                                                      tctGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATtc                                                                           >  2:643920/1‑139 (MQ=255)                                                                        ttGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGaaa                                                         >  2:593784/1‑139 (MQ=255)                                                                              gCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCgaga                                                   <  2:1113081/139‑1 (MQ=255)                                                                                tttCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGaaa                                                 <  1:593784/139‑1 (MQ=255)                                                                                tttCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGaaa                                                 <  2:1282404/139‑1 (MQ=255)                                                                                          atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGaa                                            <  1:23247/134‑1 (MQ=255)                                                                                          atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGaa                                            >  2:23247/1‑134 (MQ=255)                                                                                          atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGt                                       <  2:1138373/139‑1 (MQ=255)                                                                                            cGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAAt                                                                             >  1:785284/1‑99 (MQ=255)                                                                                            cGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAAt                                                                             <  2:785284/99‑1 (MQ=255)                                                                                                 tGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTtct                                >  1:217638/1‑139 (MQ=255)                                                                                                  gTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGAcc                                                                                          >  2:1312067/1‑80 (MQ=255)                                                                                                  gTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGAcc                                                                                          <  1:1312067/80‑1 (MQ=255)                                                                                                      aTTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCtcatca                           >  2:948262/1‑139 (MQ=255)                                                                                                                  cTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTgcc               >  2:1477522/1‑139 (MQ=255)                                                                                                                    gTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTgg                                                              <  2:1305725/90‑1 (MQ=255)                                                                                                                    gTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTgg                                                              >  1:1305725/1‑90 (MQ=255)                                                                                                                     ttAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        <  1:434581/63‑1 (MQ=255)                                                                                                                     ttAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        >  2:434581/1‑63 (MQ=255)                                                                                                                      tAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCt           <  2:1358832/139‑1 (MQ=255)                                                                                                                        gCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGa         <  1:1445913/139‑1 (MQ=255)                                                                                                                               ccTGGCGCCTGTTTGCCGAGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTaa  >  1:815899/1‑139 (MQ=255)                                                                                                                                      |                                                                                                                                    TCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGTCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTAA  >  NC_000913/1769957‑1770221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑