Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,581	C→T	T31M (ACG→ATG)	oxyR →	oxidative and nitrosative stress transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,158,581	0	C	T	100.0%	182.4 / NA	56	T31M (ACG→ATG)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/27);  total (29/27)

CTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGA  >  NC_000913/4158448‑4158715                                                                                                                                      |                                                                                                                                       cTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTa                                                                                                                                   <  1:557807/139‑1 (MQ=255)    ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:103622/1‑139 (MQ=255)    ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:187637/1‑139 (MQ=255)    ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:64713/1‑139 (MQ=255)    ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCAGCAGATTCCTACCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:491324/1‑139 (MQ=255)      tATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCggg                                                                                                                              >  2:426155/1‑139 (MQ=255)        tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCa                                                                                                                            <  2:452917/139‑1 (MQ=255)        tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCa                                                                                                                            <  1:682604/139‑1 (MQ=255)         cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCaa                                                                                                                           >  2:62121/1‑139 (MQ=255)                     tCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTCGCATTGGCTGAACACCGCCATTTCCGGCGTGCGGCAGATGCCTGCCACGTAAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTg                                                                                                               <  1:491324/139‑1 (MQ=255)                              tGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGTCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAg                                                                                                      <  1:251380/139‑1 (MQ=255)                                      ggatAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGt                                                                                              <  2:469297/139‑1 (MQ=255)                                        atAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCATGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            >  1:612845/1‑139 (MQ=255)                                             gAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTg                                                                                       >  2:450810/1‑139 (MQ=255)                                              aaTATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGc                                                                                      >  2:187786/1‑139 (MQ=255)                                                 atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGa                                                                                                          <  2:621329/116‑1 (MQ=255)                                                 atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGa                                                                                                          >  1:621329/1‑116 (MQ=255)                                                  ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCTTTCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGa                                                                                  >  2:555010/1‑139 (MQ=255)                                                  ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGc                                                                                                     <  1:58989/120‑1 (MQ=255)                                                  ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGc                                                                                                     >  2:58989/1‑120 (MQ=255)                                                      tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGt                                                                                                                     >  2:185767/1‑100 (MQ=255)                                                      tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGt                                                                                                                     <  1:185767/100‑1 (MQ=255)                                                      tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGGGCgg                                                                              >  2:592524/1‑139 (MQ=255)                                                        aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCATGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            <  2:612845/139‑1 (MQ=255)                                                        aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            <  2:351554/139‑1 (MQ=255)                                                        aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            >  2:336112/1‑139 (MQ=255)                                                                  ccTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                                                                  <  1:187637/139‑1 (MQ=255)                                                                  ccTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                                                                  <  1:64713/139‑1 (MQ=255)                                                                   cTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                                                                 >  1:142977/1‑139 (MQ=255)                                                                     ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:636415/1‑139 (MQ=255)                                                                     ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:186679/1‑139 (MQ=255)                                                                     ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  2:443092/1‑139 (MQ=255)                                                                     ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:174325/1‑139 (MQ=255)                                                                       tggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                                                             >  1:657050/1‑139 (MQ=255)                                                                       tggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                                                             >  2:712063/1‑139 (MQ=255)                                                                            ttGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCa                                                        >  2:461054/1‑139 (MQ=255)                                                                              ggCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc                                                      <  1:623792/139‑1 (MQ=255)                                                                              ggCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc                                                      <  1:461054/139‑1 (MQ=255)                                                                                        cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAg                                                                                 >  1:270162/1‑102 (MQ=255)                                                                                        cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAg                                                                                 <  2:270162/102‑1 (MQ=255)                                                                                        cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCa                                                                          >  2:192769/1‑109 (MQ=255)                                                                                        cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCa                                                                          <  1:192769/109‑1 (MQ=255)                                                                                        cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa                                            >  2:418875/1‑139 (MQ=255)                                                                                         gCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAt                                           >  2:185782/1‑139 (MQ=255)                                                                                               ttCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTa                                                                    >  2:766702/1‑108 (MQ=255)                                                                                               ttCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTa                                                                    <  1:766702/108‑1 (MQ=255)                                                                                                      tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:62121/139‑1 (MQ=255)                                                                                                      tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:426155/139‑1 (MQ=255)                                                                                                      tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:185782/139‑1 (MQ=255)                                                                                                           cAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGgc                         <  1:443092/139‑1 (MQ=255)                                                                                                                tCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTa                    <  2:142977/139‑1 (MQ=255)                                                                                                                    gCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGt                <  2:657050/139‑1 (MQ=255)                                                                                                                           tAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGt         <  2:235419/139‑1 (MQ=255)                                                                                                                            agccagccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            >  2:224135/1‑55 (MQ=255)                                                                                                                            agccagccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            <  1:224135/55‑1 (MQ=255)                                                                                                                                 gccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTg   >  2:1274/1‑139 (MQ=255)                                                                                                                                  ccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGa  <  1:10717/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                       CTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGA  >  NC_000913/4158448‑4158715

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑