Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,979,943	C→T	A308V (GCT→GTT)  *231* (TAG→TAA)	lysR → ygeA ←	transcriptional activator of lysA, autorepressor Asp/Glu_racemase family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,979,943	0	C	T	100.0%	213.7 / NA	67	A308V (GCT→GTT)  *231* (TAG→TAA)	lysR ygeA	transcriptional activator of lysA, autorepressor Asp/Glu_racemase family protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (37/30);  total (37/30)

CCGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGCTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGCCCT  >  NC_000913/2979816‑2980073                                                                                                                                |                                                                                                                                   ccGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCAt                                                                                                                         <  1:261224/139‑1 (MQ=255)                  gATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCt                                                                                                        <  1:1275371/139‑1 (MQ=255)                       gCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCa                                                                                                   >  1:1690169/1‑139 (MQ=255)                                 ccGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                         <  2:1690169/139‑1 (MQ=255)                                   gCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCcgcg                                                                                       >  2:1745707/1‑139 (MQ=255)                                    cccGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGa                                                                                                                               >  2:414313/1‑98 (MQ=255)                                    cccGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGa                                                                                                                               <  1:414313/98‑1 (MQ=255)                                       gTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTAt                                                                                   >  1:1325083/1‑139 (MQ=255)                                              gcgcTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                            <  1:1301945/139‑1 (MQ=255)                                                gcTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAg                                                                          >  1:214114/1‑139 (MQ=255)                                                   ggTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCa                                                                                                                          >  2:1168494/1‑88 (MQ=255)                                                   ggTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCa                                                                                                                          <  1:1168494/88‑1 (MQ=255)                                                   ggTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCa                                                                       >  2:658351/1‑139 (MQ=255)                                                    gTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccgc                                                                                        <  1:409387/121‑1 (MQ=255)                                                    gTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccgc                                                                                        >  2:409387/1‑121 (MQ=255)                                                    gTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAac                                                                              <  1:1451623/131‑1 (MQ=255)                                                    gTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAac                                                                              >  2:1451623/1‑131 (MQ=255)                                                      tCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCaaaa                                                                    >  2:912521/1‑139 (MQ=255)                                                         ggCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                             <  1:359676/95‑1 (MQ=255)                                                         ggCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                             >  2:359676/1‑95 (MQ=255)                                                            gTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCG‑CAGTTACGACAGCATAAAAGCGATAGCATCCTCAGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTgcg                                                             <  1:1105279/139‑1 (MQ=255)                                                              ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGa                                                                                                                               <  1:334596/72‑1 (MQ=255)                                                              ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGa                                                                                                                               >  2:334596/1‑72 (MQ=255)                                                              ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATcc                                                                                                         <  2:906443/94‑1 (MQ=255)                                                              ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATcc                                                                                                         >  1:906443/1‑94 (MQ=255)                                                              ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTgcgc                                                            <  2:489638/139‑1 (MQ=255)                                                                        tttACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCa                                                  <  1:658351/139‑1 (MQ=255)                                                                              aGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCATTTACGACAGCATAAAAGCGACAGCACCCTCGGCATGGATCGCCGCGCTATCAAACACAGGCACCACACTGCGCTCTTCTGGCACCAGTa                                            >  1:144699/1‑139 (MQ=255)                                                                                cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGc                                                   >  2:1294605/1‑130 (MQ=255)                                                                                cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGc                                                   <  1:1294605/130‑1 (MQ=255)                                                                                cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTaaa                                          >  2:20296/1‑139 (MQ=255)                                                                                   ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCa                                       >  2:1335739/1‑139 (MQ=255)                                                                                   ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCa                                       >  1:280538/1‑139 (MQ=255)                                                                                       aCCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAAttt                                   >  1:1772574/1‑139 (MQ=255)                                                                                           aaaCTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCtgt                               <  2:214114/139‑1 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCg                                                                                                                  >  2:956404/1‑50 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCg                                                                                                                  <  1:956404/50‑1 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGAc                                                                                                                >  2:592005/1‑52 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGAc                                                                                                                <  1:592005/52‑1 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGcc                         >  2:1056783/1‑139 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGcc                         >  2:641874/1‑139 (MQ=255)                                                                                                 gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGcc                         >  1:1724710/1‑139 (MQ=255)                                                                                                      ttCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCa                        >  2:653577/1‑135 (MQ=255)                                                                                                      ttCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCa                        <  1:653577/135‑1 (MQ=255)                                                                                                        ctctTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAac                                                                              <  1:180299/79‑1 (MQ=255)                                                                                                        ctctTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAac                                                                              >  2:180299/1‑79 (MQ=255)                                                                                                           ttGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACg               >  1:1678648/1‑139 (MQ=255)                                                                                                            tGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGc              <  1:1335739/139‑1 (MQ=255)                                                                                                            tGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGc              >  2:787502/1‑139 (MQ=255)                                                                                                            gcaCGCTATTTTGTGGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCACGGTATCAAACACAGGCAAAACACCGCGCTCTTCTGTCACCATTAAACCAATTTATGTGCAGCCAAAAATGACGc              <  1:1056783/137‑1 (MQ=255)                                                                                                             gACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGc                                                   >  1:1576899/1‑101 (MQ=255)                                                                                                             gACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGc                                                   <  2:1576899/101‑1 (MQ=255)                                                                                                             gACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGcc             <  1:20296/139‑1 (MQ=255)                                                                                                             gACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGcc             <  1:1745707/139‑1 (MQ=255)                                                                                                                gCTATTTTGTCGTCAGTTCCGACAGCATAAAAGCGACAGCATCCTCCGCATGGATCGCCGCGATATCCAACACAGGCAAAACACTGCGCTCTTCTGGCACCATCACACCAATTTCTGTGCATCCAAAACTGACGTCCtg          >  1:68106/1‑139 (MQ=255)                                                                                                                gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCtg          >  2:570179/1‑139 (MQ=255)                                                                                                                gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCtg          >  2:733301/1‑139 (MQ=255)                                                                                                                  tATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                         >  1:1572838/1‑58 (MQ=255)                                                                                                                  tATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                         <  2:1572838/58‑1 (MQ=255)                                                                                                                  tATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCtgtg        >  1:560026/1‑139 (MQ=255)                                                                                                                   aTTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTgc       >  1:994013/1‑139 (MQ=255)                                                                                                                    ttttGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTgcg      <  2:1772574/139‑1 (MQ=255)                                                                                                                     tttGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                            <  1:751755/68‑1 (MQ=255)                                                                                                                     tttGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                            >  2:751755/1‑68 (MQ=255)                                                                                                                        gtcgtcAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGCCCt  <  2:1724710/139‑1 (MQ=255)                                                                                                                            tcAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                            >  2:999530/1‑61 (MQ=255)                                                                                                                            tcAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                            <  1:999530/61‑1 (MQ=255)                                                                                                                                |                                                                                                                                   CCGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGCTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGCCCT  >  NC_000913/2979816‑2980073

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑