Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	947,123	T→C	intergenic (+104/‑106)	ycaD → / → ycaM	putative MFS transporter, inner membrane protein/putative transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	947,123	0	T	C	100.0%	194.0 / NA	54	intergenic (+104/‑106)	ycaD/ycaM	putative MFS transporter, inner membrane protein/putative transporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/28);  total (26/28)

TCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGTGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTGTCTATGGCTGGGA  >  NC_000913/946989‑947238                                                                                                                                       |                                                                                                                    tCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  2:89052/139‑1 (MQ=255) tCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  2:52665/139‑1 (MQ=255) tCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  2:1204207/139‑1 (MQ=255) tCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  2:1201731/139‑1 (MQ=255) tCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  1:586068/139‑1 (MQ=255)        ccGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTta                                                                                                          <  2:484541/139‑1 (MQ=255)          gAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTtata                                                                                                        >  1:1383885/1‑139 (MQ=255)           aaaCCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 >  2:171976/1‑129 (MQ=255)           aaaCCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  1:171976/129‑1 (MQ=255)           aaaCCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATaa                                                                                                       >  2:1170945/1‑139 (MQ=255)                                aTGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCg                                                                                  <  1:1170945/139‑1 (MQ=255)                                     ttCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGTAGGTTATAATTTTGCATTTCGCTATTTCCGCActt                                                                             >  1:769108/1‑139 (MQ=255)                                     ttCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTAt                                                                                       >  2:1169527/1‑129 (MQ=255)                                     ttCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTAt                                                                                       <  1:1169527/129‑1 (MQ=255)                                     ttCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCActt                                                                             >  1:617977/1‑139 (MQ=255)                                              agTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGc                                                                    <  2:797002/139‑1 (MQ=255)                                                tgtgAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCAc                                                                               <  2:1194415/126‑1 (MQ=255)                                                tgtgAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCAc                                                                               >  1:1194415/1‑126 (MQ=255)                                                         aCTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATc                                                         >  1:718559/1‑139 (MQ=255)                                                          cTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATcc                                                        >  2:991300/1‑139 (MQ=255)                                                          cTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATcc                                                        <  1:736598/139‑1 (MQ=255)                                                           tGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 >  2:1343826/1‑81 (MQ=255)                                                           tGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  1:1343826/81‑1 (MQ=255)                                                                cacaCTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 >  1:1417859/1‑76 (MQ=255)                                                                cacaCTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCgcag                                                                                                                 <  2:1417859/76‑1 (MQ=255)                                                                       tGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGa                                           >  1:353238/1‑139 (MQ=255)                                                                                 tttCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTa                                 >  2:277940/1‑139 (MQ=255)                                                                                 tttCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTa                                 >  1:213734/1‑139 (MQ=255)                                                                                   tcttctATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAAt                               >  2:670836/1‑139 (MQ=255)                                                                                         aTCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATccc                                                       <  2:344066/109‑1 (MQ=255)                                                                                         aTCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATccc                                                       >  1:344066/1‑109 (MQ=255)                                                                                          tCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCg                        <  1:277940/139‑1 (MQ=255)                                                                                          tCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCg                        <  1:670836/139‑1 (MQ=255)                                                                                              aCTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATc                                                         >  2:139227/1‑102 (MQ=255)                                                                                              aCTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATc                                                         <  1:139227/102‑1 (MQ=255)                                                                                               cTTGTTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCCGCAGGTTATAATTTTGCATTTCTCTATTTCCGCACTTCTTATTTGCCGCGCATGATCCCTGGTTTTACCGATGATCTTGTAATTTTGGCGAAGGa                   >  2:1361634/1‑139 (MQ=255)                                                                                                   cTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCg                                                                                  <  1:472201/72‑1 (MQ=255)                                                                                                   cTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCg                                                                                  >  2:472201/1‑72 (MQ=255)                                                                                                   cTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTTTTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTg               >  2:415306/1‑139 (MQ=255)                                                                                                   cTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGAt                                          <  1:521925/112‑1 (MQ=255)                                                                                                   cTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGAt                                          >  2:521925/1‑112 (MQ=255)                                                                                                    tttATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCtt                                   >  2:1345058/1‑118 (MQ=255)                                                                                                    tttATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCtt                                   <  1:1345058/118‑1 (MQ=255)                                                                                                      tATTCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTGTCt            <  2:978373/139‑1 (MQ=255)                                                                                                        ttCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTTTTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTGTCTAt          <  1:415306/139‑1 (MQ=255)                                                                                                        ttCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGtttt                                                <  2:681946/101‑1 (MQ=255)                                                                                                        ttCCAAATTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGtttt                                                >  1:681946/1‑101 (MQ=255)                                                                                                             aaTTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTAcc                                             >  1:1339322/1‑99 (MQ=255)                                                                                                             aaTTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTAcc                                             <  2:1339322/99‑1 (MQ=255)                                                                                                             aaTTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGc                                        >  2:619867/1‑104 (MQ=255)                                                                                                             aaTTTTATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGc                                        <  1:619867/104‑1 (MQ=255)                                                                                                                tttATTCGTTTAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTGTCTATGGCTGGGa  <  2:353238/139‑1 (MQ=255)                                                                                                                         ttAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCg                                                                                  <  1:133377/50‑1 (MQ=255)                                                                                                                         ttAAAAATAAAATGCGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCg                                                                                  >  2:133377/1‑50 (MQ=255)                                                                                                                                       |                                                                                                                    TCATACGCCGAAACCCGTTGCTCACGTGTAAATGAATTCAAGCAGAGTGTGAACTTACTGTTTCACACTCTGCTTTTTTGTTTCTTCTATCTGACTTGCTTTATTCCAAATTTTATTCGTTTAAAAATAAAATGTGCAGCAGGTTATAATTTTGCATTTCGCTATTTCCGCACTTCTTATTTGCCGCGCATAATCCCTCGTTTTACCGATGCCCCTTTAATTTTGGCGAAGGATTTGTCTATGGCTGGGA  >  NC_000913/946989‑947238

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑