Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,441,436	T→C	N103S (AAC→AGC)	hslJ ←	heat‑inducible lipoprotein involved in novobiocin resistance

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,441,436	0	T	C	100.0%	236.1 / NA	66	N103S (AAC→AGC)	hslJ	heat‑inducible lipoprotein involved in novobiocin resistance
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (32/34);  total (32/34)

GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAATCATC  >  NC_000913/1441304‑1441564                                                                                                                                     |                                                                                                                                 gggAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            >  2:359428/1‑139 (MQ=255) gggAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            <  1:1594139/139‑1 (MQ=255)              gCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTg                                                                                                               <  2:354715/139‑1 (MQ=255)                tATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCg                                                                                                             >  1:1871082/1‑139 (MQ=255)                   tAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          <  2:702450/139‑1 (MQ=255)                       tCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgc                                                                                                      <  1:1624054/139‑1 (MQ=255)                          ttAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   >  2:1525658/1‑139 (MQ=255)                            aaaTCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGcaca                                                                                                 <  1:1178075/139‑1 (MQ=255)                              aTCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCAcatc                                                                                               >  1:881329/1‑139 (MQ=255)                                                 aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGcc                                                                            >  2:270974/1‑139 (MQ=255)                                                   tGTCTGTTTTGTGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCt                                                                          >  2:685307/1‑139 (MQ=255)                                                       tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     <  2:452681/108‑1 (MQ=255)                                                       tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     >  1:452681/1‑108 (MQ=255)                                                       tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTgg                                                                      >  2:227324/1‑139 (MQ=255)                                                         ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGtt                                                                                                         >  2:427882/1‑102 (MQ=255)                                                         ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGtt                                                                                                         <  1:427882/102‑1 (MQ=255)                                                         ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   >  1:722461/1‑108 (MQ=255)                                                         ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   <  2:722461/108‑1 (MQ=255)                                                                gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:1871082/139‑1 (MQ=255)                                                                gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  1:685307/139‑1 (MQ=255)                                                                gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:594669/139‑1 (MQ=255)                                                                 tCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          <  2:158453/93‑1 (MQ=255)                                                                 tCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          >  1:158453/1‑93 (MQ=255)                                                                      aGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     <  1:1238286/93‑1 (MQ=255)                                                                      aGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     >  2:1238286/1‑93 (MQ=255)                                                                                  ttCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            <  1:247009/58‑1 (MQ=255)                                                                                  ttCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            >  2:247009/1‑58 (MQ=255)                                                                                     gcgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:881329/139‑1 (MQ=255)                                                                                     gcgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:1413649/139‑1 (MQ=255)                                                                                        gTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCAc                                     <  1:1525658/139‑1 (MQ=255)                                                                                               ccACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTaaa                              <  1:227324/139‑1 (MQ=255)                                                                                                cACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:359428/139‑1 (MQ=255)                                                                                                     gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        >  1:1308130/1‑123 (MQ=255)                                                                                                     gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:1308130/123‑1 (MQ=255)                                                                                                     gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGtt                        >  2:495894/1‑139 (MQ=255)                                                                                                       gCATCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCGCCGCTaa                               >  2:1278251/1‑130 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                                >  1:1676448/1‑81 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                                <  2:1676448/81‑1 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  2:420218/1‑100 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  1:420218/100‑1 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTaa                               <  1:1278251/130‑1 (MQ=255)                                                                                                       gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTac                      >  1:968532/1‑139 (MQ=255)                                                                                                        cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  2:1277039/1‑131 (MQ=255)                                                                                                        cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:1277039/131‑1 (MQ=255)                                                                                                           cttcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  2:386482/1‑128 (MQ=255)                                                                                                           cttcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:386482/128‑1 (MQ=255)                                                                                                             tcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtgc                >  1:147963/1‑139 (MQ=255)                                                                                                             tcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtgc                >  2:394263/1‑139 (MQ=255)                                                                                                                ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGt                                               >  1:385602/1‑105 (MQ=255)                                                                                                                ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGt                                               <  2:385602/105‑1 (MQ=255)                                                                                                                ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtg                 <  2:1206445/135‑1 (MQ=255)                                                                                                                ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtg                 >  1:1206445/1‑135 (MQ=255)                                                                                                                  cAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCg           >  1:830995/1‑139 (MQ=255)                                                                                                                     cATTTCGCTAATGGTGCGATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  1:1077020/1‑86 (MQ=255)                                                                                                                     cATTTCGCTAATGGTGCCATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:1077020/86‑1 (MQ=255)                                                                                                                       tttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAg                                                >  1:1405375/1‑97 (MQ=255)                                                                                                                       tttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAg                                                <  2:1405375/97‑1 (MQ=255)                                                                                                                        ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:884403/83‑1 (MQ=255)                                                                                                                        ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  1:884403/1‑83 (MQ=255)                                                                                                                        ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  2:549348/115‑1 (MQ=255)                                                                                                                        ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  1:549348/1‑115 (MQ=255)                                                                                                                        ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatc     >  1:1053896/1‑139 (MQ=255)                                                                                                                          cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATAc                                                                                           >  2:1055721/1‑51 (MQ=255)                                                                                                                          cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATAc                                                                                           <  1:1055721/51‑1 (MQ=255)                                                                                                                          cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatcat   <  1:270974/139‑1 (MQ=255)                                                                                                                           gCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatcatc  <  1:495894/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                 GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAATCATC  >  NC_000913/1441304‑1441564

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: ‑