Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,538	C→T	H17Y (CAT→TAT)	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	4,158,538	0	C	T	100.0%	161.1 / NA	50	H17Y (CAT→TAT)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/23);  total (27/23)

CAGAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAA  >  NC_000913/4158412‑4158673                                                                                                                               |                                                                                                                                        cagAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTg                                                                                                                             <  1:1028006/139‑1 (MQ=255)     aTGGTTGATAGGGATAATCGTTCATTGCTATTCTAACTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGAGCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGc                                                                                                                         <  2:843156/139‑1 (MQ=255)          tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCa                                                                                                                        >  2:79314/1‑135 (MQ=255)          tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCa                                                                                                                        <  1:79314/135‑1 (MQ=255)          tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGAtt                                                                                                                    >  2:343701/1‑139 (MQ=255)             tAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCt                                                                                                                 <  1:343701/139‑1 (MQ=255)                                    tCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCtt                                                                                          >  1:996273/1‑139 (MQ=255)                                        ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  2:16317/1‑139 (MQ=255)                                        ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  1:197540/1‑139 (MQ=255)                                        ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  1:339828/1‑139 (MQ=255)                                            tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:197540/139‑1 (MQ=255)                                             cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTag                                                                                                       >  2:85/1‑117 (MQ=255)                                             cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTag                                                                                                       <  1:85/117‑1 (MQ=255)                                             cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCaa                                                                                 >  1:391895/1‑139 (MQ=255)                                                cATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTcc                                                                                                                  >  1:995084/1‑103 (MQ=255)                                                cATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTcc                                                                                                                  <  2:995084/103‑1 (MQ=255)                                                  tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTagccag                                                                                                   >  2:307754/1‑116 (MQ=255)                                                  tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTagccag                                                                                                   <  1:307754/116‑1 (MQ=255)                                                  tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCg                                                                            >  1:1110382/1‑139 (MQ=255)                                                  tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCg                                                                            <  2:339828/139‑1 (MQ=255)                                                        aTCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCt                                                                      >  1:1094797/1‑139 (MQ=255)                                                                                     atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAg                                                                                        <  2:292822/92‑1 (MQ=255)                                                                                     atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAg                                                                                        >  1:292822/1‑92 (MQ=255)                                                                                     atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  >  1:124605/1‑98 (MQ=255)                                                                                     atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:124605/98‑1 (MQ=255)                                                                                      ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGt                                                                                                                              >  2:601818/1‑53 (MQ=255)                                                                                      ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGt                                                                                                                              <  1:601818/53‑1 (MQ=255)                                                                                         gTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCg                                     >  1:323784/1‑139 (MQ=255)                                                                                            aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                  <  1:1112796/139‑1 (MQ=255)                                                                                            aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                  <  2:1094797/139‑1 (MQ=255)                                                                                                      ccTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                        <  2:323784/139‑1 (MQ=255)                                                                                                      ccTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                        <  1:16317/139‑1 (MQ=255)                                                                                                       cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       >  2:642753/1‑139 (MQ=255)                                                                                                       cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGACACGTTAGCCAGCCGACGCTTa                                                                                         >  1:1049193/1‑73 (MQ=255)                                                                                                       cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGACACGTTAGCCAGCCGACGCTTa                                                                                         <  2:1049193/73‑1 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGTGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                     >  1:760530/1‑139 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:189915/78‑1 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  >  1:189915/1‑78 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTa                                                                          <  2:670345/86‑1 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                     >  1:623862/1‑139 (MQ=255)                                                                                                         ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGACAAATTCGTa                                                                          >  1:670345/1‑86 (MQ=255)                                                                                                           tggCATTGGCTGAACACCGCTATTTTCGGTGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                   <  2:760530/139‑1 (MQ=255)                                                                                                            ggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgttg                  >  1:811323/1‑139 (MQ=255)                                                                                                              cATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       >  1:780358/1‑132 (MQ=255)                                                                                                              cATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       <  2:780358/132‑1 (MQ=255)                                                                                                                  ggCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc            <  2:391895/139‑1 (MQ=255)                                                                                                                        acacCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCg      >  2:896314/1‑139 (MQ=255)                                                                                                                            cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTa                                                                                         <  1:515340/52‑1 (MQ=255)                                                                                                                            cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa  >  2:367058/1‑139 (MQ=255)                                                                                                                            cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa  >  1:638866/1‑139 (MQ=255)                                                                                                                               |                                                                                                                                        CAGAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAA  >  NC_000913/4158412‑4158673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑