Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,939,219	G→A	*331* (TAG→TAA)  S465F (TCT→TTT)	rbsR → hsrA ←	transcriptional repressor of ribose metabolism putative multidrug or homocysteine efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,939,219	0	G	A	100.0%	195.2 / NA	61	*331* (TAG→TAA)  S465F (TCT→TTT)	rbsR hsrA	transcriptional repressor of ribose metabolism putative multidrug or homocysteine efflux system
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/32);  total (29/32)

CACTATCCACCAACCGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAGATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTCGACAGTCGTTGTG  >  NC_000913/3939087‑3939347                                                                                                                                     |                                                                                                                                 cACTATCCACCAACCGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTAc                                                                                                                            >  1:282843/1‑139 (MQ=255)    tATCCACCAACCGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          >  2:373725/1‑138 (MQ=255)    tATCCACCAACCGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          <  1:373725/138‑1 (MQ=255)              ccGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGAt                                                                                                               <  2:246641/139‑1 (MQ=255)                               ggAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCgg                                                                                              <  1:422064/139‑1 (MQ=255)                                                    catccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCCTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACa                                                                         >  1:224585/1‑139 (MQ=255)                                                     atccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACg                                                                                                                           >  1:108346/1‑88 (MQ=255)                                                     atccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACg                                                                                                                           <  2:108346/88‑1 (MQ=255)                                                     atccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACAt                                                                        >  1:729735/1‑139 (MQ=255)                                                     atccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACAt                                                                        >  2:459801/1‑139 (MQ=255)                                                      tccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACAtt                                                                       >  1:799306/1‑139 (MQ=255)                                                      tccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACAtt                                                                       >  1:824529/1‑139 (MQ=255)                                                       ccatcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATtg                                                                      >  2:670323/1‑139 (MQ=255)                                                        catcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACg                                                                                                                           >  2:142455/1‑85 (MQ=255)                                                        catcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACg                                                                                                                           <  1:142455/85‑1 (MQ=255)                                                          tcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          >  1:324148/1‑84 (MQ=255)                                                          tcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          <  2:324148/84‑1 (MQ=255)                                                          tcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATtgctg                                                                   >  2:27953/1‑139 (MQ=255)                                                          tcGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATtgctg                                                                   >  2:227764/1‑139 (MQ=255)                                                               tAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGaa                                                              >  2:583848/1‑139 (MQ=255)                                                                aaCCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAg                                                             <  2:705821/139‑1 (MQ=255)                                                                 aCCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGc                                                            <  2:505121/139‑1 (MQ=255)                                                                    cAGCCGACCCTTCATCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAAc                                                         <  2:799306/139‑1 (MQ=255)                                                                    cAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAAc                                                         <  2:824529/139‑1 (MQ=255)                                                                      gCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAg                                                       <  1:670323/139‑1 (MQ=255)                                                                      gCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAg                                                       <  1:867717/139‑1 (MQ=255)                                                                       ccGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGt                                                      >  2:790963/1‑139 (MQ=255)                                                                          aCCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCAt                                                                              >  1:166889/1‑112 (MQ=255)                                                                          aCCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCAt                                                                              <  2:166889/112‑1 (MQ=255)                                                                          aCCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGtaat                                                   <  2:729735/139‑1 (MQ=255)                                                                             cTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTaataat                                                >  1:804312/1‑139 (MQ=255)                                                                               tCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          >  2:587336/1‑63 (MQ=255)                                                                               tCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGc                                                                                                                          <  1:587336/63‑1 (MQ=255)                                                                                cAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGcc                                             >  1:776128/1‑139 (MQ=255)                                                                                  gCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCa                                           <  1:624714/139‑1 (MQ=255)                                                                                  gCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCa                                           <  1:459801/139‑1 (MQ=255)                                                                                      caacGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCt                                                                                                                         <  1:598611/57‑1 (MQ=255)                                                                                      caacGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCt                                                                                                                         >  2:598611/1‑57 (MQ=255)                                                                                      caacGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATtgt                                       <  1:27953/139‑1 (MQ=255)                                                                                      caacGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATtgt                                       >  2:653664/1‑139 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGa                                                                                   <  1:374386/93‑1 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGa                                                                                   >  2:374386/1‑93 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGa                                     <  2:299992/139‑1 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGa                                     >  2:341889/1‑139 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGa                                     >  2:235945/1‑139 (MQ=255)                                                                                        acGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGa                                     <  2:224585/139‑1 (MQ=255)                                                                                           aTTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATaa                                  >  1:93891/1‑139 (MQ=255)                                                                                              aCAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACg                               <  2:32975/139‑1 (MQ=255)                                                                                              aCAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACg                               <  1:763883/139‑1 (MQ=255)                                                                                                    tACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGaa                                                                           <  1:288794/89‑1 (MQ=255)                                                                                                    tACTCCGATTCTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGaa                                                                           >  2:288794/1‑89 (MQ=255)                                                                                                              cTGATGGAACGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTc               <  1:227764/139‑1 (MQ=255)                                                                                                                     aaCGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGc                                              <  1:73449/101‑1 (MQ=255)                                                                                                                     aaCGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGc                                              >  2:73449/1‑101 (MQ=255)                                                                                                                      aCGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGc                                                            >  2:595264/1‑86 (MQ=255)                                                                                                                      aCGCGGTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGc                                                            <  1:595264/86‑1 (MQ=255)                                                                                                                          ggTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTCGACAGTCGTtgt   <  1:235945/139‑1 (MQ=255)                                                                                                                          ggTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTCGACAGTCGTtgt   <  1:790963/139‑1 (MQ=255)                                                                                                                           gTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCaa                                                          >  2:43166/1‑83 (MQ=255)                                                                                                                           gTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCaa                                                          <  1:43166/83‑1 (MQ=255)                                                                                                                           gTTCGGCTTAAATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTCGACAGTCGTtgtg  <  1:339408/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                 CACTATCCACCAACCGAAAGATGAACTGGGGGAGCTGGCGATTGATGTACTCATCCATCGGATAACCCAGCCGACCCTTCAGCAACAACGATTACAACTTACTCCGATTCTGATGGAACGCGGTTCGGCTTAGATTTACGCTGTCTTTTGATCAAATTATTACCATCGGTTGTTTTCAGAAGCATGAACATTGCTGCTGAAGCAACAGTAATAATGCCCATTGTGATAAACGTATAGTGGAATTGTTCGACAGTCGTTGTG  >  NC_000913/3939087‑3939347

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑