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%	170.4 / NA	53	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 (27/26);  total (27/26)

TTCCGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGCTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGCC  >  NC_000913/2979814‑2980071                                                                                                                                  |                                                                                                                                 ttCCGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGc                                                                                                                         >  2:381100/1‑139 (MQ=255)   ccGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCAt                                                                                                                       >  1:391516/1‑139 (MQ=255)        cACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAg                                                                                                                  <  1:381100/139‑1 (MQ=255)             tCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACa                                                                                                             >  2:279341/1‑139 (MQ=255)             tCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACa                                                                                                             >  1:797821/1‑139 (MQ=255)                  cTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATc                                                                                                        <  1:447333/139‑1 (MQ=255)                   tGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATcc                                                                                                       <  2:391516/139‑1 (MQ=255)                         gCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCa                                                                                                 <  2:99546/139‑1 (MQ=255)                               tGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATc                                                                                           >  1:999969/1‑139 (MQ=255)                               tGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATc                                                                                           >  1:287878/1‑139 (MQ=255)                                        cGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTa                                                                                  >  1:838140/1‑139 (MQ=255)                                           catcaGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCa                                                                               <  2:722308/139‑1 (MQ=255)                                                      gTTCAGGTGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCaa                                                                    >  1:1258475/1‑139 (MQ=255)                                                                ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACa                                                                                                             >  2:1298721/1‑88 (MQ=255)                                                                ttAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACa                                                                                                             <  1:1298721/88‑1 (MQ=255)                                                                 tAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                           >  2:1018424/1‑89 (MQ=255)                                                                 tAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                           <  1:1018424/89‑1 (MQ=255)                                                                 tAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGct                                                         <  2:287878/139‑1 (MQ=255)                                                                 tAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGct                                                         <  1:510620/139‑1 (MQ=255)                                                                        cATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATGGCCGCGGTATCAAacac                                                                          >  2:903144/1‑115 (MQ=255)                                                                        cATTGACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                          <  1:903144/115‑1 (MQ=255)                                                                          tttACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCa                                                >  1:533310/1‑139 (MQ=255)                                                                               aaGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGt                                           <  2:1258475/139‑1 (MQ=255)                                                                                  cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAg                                                                                                            >  1:1134557/1‑71 (MQ=255)                                                                                  cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAg                                                                                                            <  2:1134557/71‑1 (MQ=255)                                                                                  cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCcgcg                                                                                     <  2:234779/94‑1 (MQ=255)                                                                                  cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCcgcg                                                                                     >  1:234779/1‑94 (MQ=255)                                                                                  cGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTaaa                                        >  2:856377/1‑139 (MQ=255)                                                                                    gggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAAcc                                      <  1:279341/139‑1 (MQ=255)                                                                                     ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCg                                                                                                                >  2:19656/1‑64 (MQ=255)                                                                                     ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCg                                                                                                                <  1:19656/64‑1 (MQ=255)                                                                                     ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                           <  2:531692/69‑1 (MQ=255)                                                                                     ggTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGc                                                                                                           >  1:531692/1‑69 (MQ=255)                                                                                      gTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCaa                                    >  2:1074699/1‑139 (MQ=255)                                                                                             aaaCTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCtgt                             <  2:533310/139‑1 (MQ=255)                                                                                               aCTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGc                           >  1:1061878/1‑139 (MQ=255)                                                                                                cTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                          <  1:508529/91‑1 (MQ=255)                                                                                                cTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                          >  2:508529/1‑91 (MQ=255)                                                                                                   gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                       <  2:270442/75‑1 (MQ=255)                                                                                                   gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                       >  1:270442/1‑75 (MQ=255)                                                                                                   gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                          <  2:258726/88‑1 (MQ=255)                                                                                                   gTCACTTCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAacac                                                                          >  1:258726/1‑88 (MQ=255)                                                                                                        ttCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATc                                                                                                        <  2:884348/53‑1 (MQ=255)                                                                                                        ttCTCTTGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATc                                                                                                        >  1:884348/1‑53 (MQ=255)                                                                                                             ttGACGCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACg             <  2:838140/139‑1 (MQ=255)                                                                                                                  gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATcc                                                                                                       >  2:1119228/1‑44 (MQ=255)                                                                                                                  gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATcc                                                                                                       <  1:1119228/44‑1 (MQ=255)                                                                                                                  gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAaca                                                                           >  1:2107/1‑72 (MQ=255)                                                                                                                  gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAaca                                                                           <  2:2107/72‑1 (MQ=255)                                                                                                                  gCTATTTTGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCtg        >  2:581961/1‑139 (MQ=255)                                                                                                                        ttGTCGTCAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGcc  <  1:856377/139‑1 (MQ=255)                                                                                                                           tcgtcAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                       >  1:971676/1‑51 (MQ=255)                                                                                                                           tcgtcAGTTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATcgccg                                                                                       <  2:971676/51‑1 (MQ=255)                                                                                                                                  |                                                                                                                                 TTCCGTTCACCGTCAGCCTGATCCGCCCCCTGCACCGCCCGTCATCAGCGCTGGTTCAGGCGTTTAGTGGGCATTTACAAGCGGGGTTACCGAAACTGGTCACTTCTCTTGACGCTATTTTGTCGTCAGCTACGACAGCATAAAAGCGACAGCATCCTCGGCATGGATCGCCGCGGTATCAAACACAGGCAAAACACTGCGCTCTTCTGGCACCAGTAAACCAATTTCTGTGCAGCCAAAAATGACGCCCTGTGCGCC  >  NC_000913/2979814‑2980071

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: ‑