Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,636,114	C→A	intergenic (+221/+94)	yhiM → / ← yhiN	acid resistance protein, inner membrane/putative oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,636,114	0	C	A	100.0%	192.1 / NA	55	intergenic (+221/+94)	yhiM/yhiN	acid resistance protein, inner membrane/putative oxidoreductase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (28/27);  total (28/27)

GCATTAATGCATAGTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTCACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGCCCACGCACTCGAC  >  NC_000913/3635970‑3636259                                                                                                                                                 |                                                                                                                                                  gcaTTAATGCATAGTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACgg                                                                                                                                               <  1:4242/149‑1 (MQ=255)     tAATGCATAGTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCt                                                                                                                                            >  2:117950/1‑148 (MQ=255)         gCATAGTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCAt                                                                                                                                         >  2:105948/1‑147 (MQ=255)           aTAGTGGTTAATTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGTCTCATTAGa                                                                                                                                     <  2:104101/149‑1 (MQ=255)              gTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGaaa                                                                                                                                   <  1:153802/148‑1 (MQ=255)                       tataAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCATATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATcac                                                                                                                           >  6:107844/1‑147 (MQ=255)                            aaaaCAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATaa                                                                                                                    >  6:136481/1‑149 (MQ=255)                                    aaaGTTACTGTTTTTTTCAACATTTTCATATTTCATAAATATCTGTCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGATGTTTTCAGTTAACGTGCTCATTAGAAAATAATCACAAGATAACCACTAt                                                                                                             <  7:91770/148‑1 (MQ=255)                                            tGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAg                                                                                                    >  4:122287/1‑149 (MQ=255)                                              tttttttCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGc                                                                                                   <  1:105948/148‑1 (MQ=255)                                                tttttCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAATGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCa                                                                                                >  1:5072/1‑149 (MQ=255)                                                      aaCCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTa                                                                                          <  5:136481/149‑1 (MQ=255)                                                       aCCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTaa                                                                                         <  8:97516/149‑1 (MQ=255)                                                            ttCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTGTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGc                                                                                      <  8:40491/147‑1 (MQ=255)                                                                  tttCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGc                                                                                                   >  3:123767/1‑128 (MQ=255)                                                                  tttCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGc                                                                                                   <  4:123767/128‑1 (MQ=255)                                                                     cATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAATATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCtaataa                                                                           >  5:82520/1‑149 (MQ=255)                                                                     cATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCtaataa                                                                           >  5:148531/1‑149 (MQ=255)                                                                          aGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCATATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTc                                                                      <  5:107844/149‑1 (MQ=255)                                                                            aTCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTGAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCAt                                                                    >  7:26965/1‑149 (MQ=255)                                                                                ggCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGAc                                                                                   <  3:116894/130‑1 (MQ=255)                                                                                ggCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGAc                                                                                   >  4:116894/1‑130 (MQ=255)                                                                                 gCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAATATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATc                                                                   <  6:82520/145‑1 (MQ=255)                                                                                 gCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATc                                                                   <  6:148531/145‑1 (MQ=255)                                                                                 gCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTa                                                               <  7:29245/149‑1 (MQ=255)                                                                                 gCCACTGAGTGAGTTTTCAATAACCTTTCCATCCACATTATATTAATCATTGATGGTTTCAGTTAACTGGATCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTa                                                               <  5:4631/149‑1 (MQ=255)                                                                                  ccACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAg                                                              >  3:88768/1‑149 (MQ=255)                                                                                        agtgagtTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAAt                                                         <  2:16447/148‑1 (MQ=255)                                                                                         gtgagtTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAg                                                       >  6:122170/1‑149 (MQ=255)                                                                                         gtgagtTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAg                                                       >  1:79583/1‑149 (MQ=255)                                                                                          tgagtTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAgg                                                      >  3:71740/1‑149 (MQ=255)                                                                                              ttttCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATa                                                        >  5:37020/1‑143 (MQ=255)                                                                                              ttttCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATa                                                        <  6:37020/143‑1 (MQ=255)                                                                                                    aTCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGgacgac                                            >  8:120607/1‑149 (MQ=255)                                                                                                       aCCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACtt                                          <  5:122170/148‑1 (MQ=255)                                                                                                            tccatccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTtgctg                                     >  7:76367/1‑148 (MQ=255)                                                                                                              catccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCaa                                  <  8:26965/149‑1 (MQ=255)                                                                                                               atccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCaa                                  >  3:111907/1‑148 (MQ=255)                                                                                                               atccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAAt                                 >  2:170752/1‑149 (MQ=255)                                                                                                               atccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAAt                                 >  7:81152/1‑149 (MQ=255)                                                                                                                tccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATa                                                        >  3:24444/1‑125 (MQ=255)                                                                                                                tccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATa                                                        <  4:24444/125‑1 (MQ=255)                                                                                                                tccaCCTTATATTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATc                                <  3:122287/149‑1 (MQ=255)                                                                                                                         tatTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATCACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTg                        <  7:120607/148‑1 (MQ=255)                                                                                                                         tatTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCt                         >  6:52924/1‑147 (MQ=255)                                                                                                                         tatTAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCt                         <  5:52924/147‑1 (MQ=255)                                                                                                                           ttAAGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTgcg                      >  3:114264/1‑148 (MQ=255)                                                                                                                              aGCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGcac                   >  7:94788/1‑148 (MQ=255)                                                                                                                               gCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTtgctg                                     >  4:94578/1‑129 (MQ=255)                                                                                                                               gCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTtgctg                                     <  3:94578/129‑1 (MQ=255)                                                                                                                               gCATGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACaa                 <  8:76367/149‑1 (MQ=255)                                                                                                                                  tGGAGGGTTTCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGcc              <  2:79583/149‑1 (MQ=255)                                                                                                                                         tttCAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGCCCACGCAc       >  5:97554/1‑149 (MQ=255)                                                                                                                                            cAGTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGCCCACGCACTc     <  1:170752/148‑1 (MQ=255)                                                                                                                                              gTTAACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGCCCACGCACTCGAc  >  5:64279/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                  GCATTAATGCATAGTGGTTAAGTATAAAAAACAGCAAAGTTACTGTTTTTTTCAACCTGTTCATATTTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTTTCAGTTCACGGGCTCATTAGAAAATAATCACAAGATAACCACTATCAAAATTAGCTCATTTTTAATGCGACTCTAATAATTTTCATCTTTAGGAAATAGGTCAGGACGACTTTGCTGCAATCAAATCCTGCGCACAAGCCCACGCACTCGAC  >  NC_000913/3635970‑3636259

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑