Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,018,760	G→A	*476* (TAG→TAA)	rmuC →	DNA recombination protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,018,760	0	G	A	100.0%	215.6 / NA	67	*476* (TAG→TAA)	rmuC	DNA recombination protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (36/31);  total (36/31)

AAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTT  >  NC_000913/4018626‑4018891                                                                                                                                       |                                                                                                                                    aaaCGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCa                                                                                                                                 <  2:1369499/139‑1 (MQ=255)      cgAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                            <  2:1416370/139‑1 (MQ=255)      cgAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                            <  1:242607/139‑1 (MQ=255)                              aCAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCt                                                                                                    >  1:1785739/1‑139 (MQ=255)                                       gAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATc                                                                                            <  2:1318363/138‑1 (MQ=255)                                       gAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATc                                                                                            >  1:1318363/1‑138 (MQ=255)                                               aTGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCaa                                                                                   <  2:1131497/139‑1 (MQ=255)                                                  aaGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCt                                                                                >  2:18147/1‑139 (MQ=255)                                                        aTCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTaca                                                                          >  2:1343399/1‑139 (MQ=255)                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                          <  1:982255/122‑1 (MQ=255)                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                          >  2:982255/1‑122 (MQ=255)                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            >  2:818885/1‑136 (MQ=255)                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            <  1:818885/136‑1 (MQ=255)                                                          cGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACt                                                                        >  1:1659248/1‑139 (MQ=255)                                                                 ggtcggtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGcc                                                                                      <  2:1302771/118‑1 (MQ=255)                                                                 ggtcggtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGcc                                                                                      >  1:1302771/1‑118 (MQ=255)                                                                           ggAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTtg                                                       <  2:1785739/139‑1 (MQ=255)                                                                            gAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                          >  2:1015438/1‑103 (MQ=255)                                                                            gAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                          <  1:1015438/103‑1 (MQ=255)                                                                                agcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                  <  1:678079/139‑1 (MQ=255)                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGag                                                                                                                          >  1:266033/1‑66 (MQ=255)                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGag                                                                                                                          <  2:266033/66‑1 (MQ=255)                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 <  1:18147/139‑1 (MQ=255)                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 >  2:1119611/1‑139 (MQ=255)                                                                                    gAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAgg                                              <  1:1119611/139‑1 (MQ=255)                                                                                            aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGag                                                                                                                          <  1:409848/55‑1 (MQ=255)                                                                                            aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGag                                                                                                                          >  2:409848/1‑55 (MQ=255)                                                                                                       cgcgATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAg                           >  2:1430593/1‑139 (MQ=255)                                                                                                        gcgATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGAc                                                                                         <  2:1053822/76‑1 (MQ=255)                                                                                                        gcgATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGAc                                                                                         >  1:1053822/1‑76 (MQ=255)                                                                                                         cgATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTc                         >  2:13985/1‑139 (MQ=255)                                                                                                           atgatgAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTcac                       >  2:243786/1‑139 (MQ=255)                                                                                                            tgatgaATATAATCAGGAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 <  1:1190007/112‑1 (MQ=255)                                                                                                            tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 >  2:1190007/1‑112 (MQ=255)                                                                                                                      aaTCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGt                                                                              <  2:1529591/73‑1 (MQ=255)                                                                                                                      aaTCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGt                                                                              >  1:1529591/1‑73 (MQ=255)                                                                                                                      aaTCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGaa                                                                 >  2:1730183/1‑86 (MQ=255)                                                                                                                      aaTCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGaa                                                                 <  1:1730183/86‑1 (MQ=255)                                                                                                                        tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            <  1:1799384/73‑1 (MQ=255)                                                                                                                        tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            >  2:1799384/1‑73 (MQ=255)                                                                                                                        tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCa          <  2:120541/139‑1 (MQ=255)                                                                                                                        tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCa          >  1:120541/1‑139 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                               >  1:168064/1‑35 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                               <  2:168064/35‑1 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCaa                                                                                   <  1:1782258/63‑1 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCaa                                                                                   >  2:1782258/1‑63 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                    >  1:756475/1‑62 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                    <  2:756475/62‑1 (MQ=255)                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                      <  1:1245210/108‑1 (MQ=255)                                                                                                                           gcaaTCGCGCTAACCCATTGCGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                      >  2:1245210/1‑108 (MQ=255)                                                                                                                            cagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            <  2:375881/69‑1 (MQ=255)                                                                                                                            cagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                            >  1:375881/1‑69 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                      <  2:137063/106‑1 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTg     >  1:472843/1‑139 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTg     <  1:1343399/139‑1 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTg     >  1:336151/1‑139 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCC‑GGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTgg    >  1:782399/1‑139 (MQ=255)                                                                                                                             agTCGCGCTAACCCATTGGGAGAAGTTAAGCCGGGTAGAAACCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                      >  1:137063/1‑106 (MQ=255)                                                                                                                              gTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTgg    >  1:720022/1‑139 (MQ=255)                                                                                                                               tCGCGCTAACCCATTGTGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 <  1:1312288/93‑1 (MQ=255)                                                                                                                               tCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                 >  2:1312288/1‑93 (MQ=255)                                                                                                                               tCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                         <  1:1148128/101‑1 (MQ=255)                                                                                                                               tCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                         >  2:1148128/1‑101 (MQ=255)                                                                                                                               tCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGt   >  2:1135998/1‑139 (MQ=255)                                                                                                                                cgcgCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGtt  >  1:917982/1‑139 (MQ=255)                                                                                                                                  cgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGcc                                                                                      >  2:1739033/1‑53 (MQ=255)                                                                                                                                  cgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGcc                                                                                      <  1:1739033/53‑1 (MQ=255)                                                                                                                                       |                                                                                                                                    AAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTT  >  NC_000913/4018626‑4018891

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: ‑