Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	352,649	G→A	D479N (GAC→AAC)	prpD →	2‑methylcitrate dehydratase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	352,649	0	G	A	100.0%	167.7 / NA	52	D479N (GAC→AAC)	prpD	2‑methylcitrate dehydratase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (21/31);  total (21/31)

GTATTCCGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCGACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGCCCG  >  NC_000913/352518‑352773                                                                                                                                    |                                                                                                                             gTATTCCGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTa                                                                                                                       <  2:329920/139‑1 (MQ=255) gTATTCCGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTa                                                                                                                       <  1:957710/139‑1 (MQ=255)    ttCCGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGt                                                                                                                    <  1:670639/139‑1 (MQ=255)       cGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTAc                                                                                                                      >  1:315744/1‑134 (MQ=255)       cGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTAc                                                                                                                      <  2:315744/134‑1 (MQ=255)        gAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCAtt                                                                                                                <  1:606791/139‑1 (MQ=255)         aaaCTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTa                                                                                                                       <  1:323506/131‑1 (MQ=255)         aaaCTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTa                                                                                                                       >  2:323506/1‑131 (MQ=255)               gTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAAc                                                                                                                            <  2:933983/120‑1 (MQ=255)               gTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTaa                                                                                                         >  1:1664443/1‑139 (MQ=255)               gTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTaa                                                                                                         >  2:1692199/1‑139 (MQ=255)               gTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTaa                                                                                                         >  1:331324/1‑139 (MQ=255)                tCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAAc                                                                                                                            <  2:1368201/119‑1 (MQ=255)                        ttCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTa                                                                                                <  2:331324/139‑1 (MQ=255)                               tcaatcTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTa                                                                                         <  1:644982/139‑1 (MQ=255)                                  atcTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACg                                                                                                                     <  1:1465154/108‑1 (MQ=255)                                  atcTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACg                                                                                                                     >  2:1465154/1‑108 (MQ=255)                                      cgcgcgCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGTGGTAAGGCGTAAGTTCaa                                                                                  <  1:998639/139‑1 (MQ=255)                                           gcCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGga                                                                             <  2:1664443/139‑1 (MQ=255)                                           gcCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGga                                                                             <  1:851377/139‑1 (MQ=255)                                            ccAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGgag                                                                            <  1:1692199/139‑1 (MQ=255)                                            ccAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGgag                                                                            <  2:1724834/139‑1 (MQ=255)                                                ttCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTc                                                                                    <  1:496645/127‑1 (MQ=255)                                                ttCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTc                                                                                    >  2:496645/1‑127 (MQ=255)                                                         cGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCtt                                                               >  2:109452/1‑139 (MQ=255)                                                             aaCAGCAGTGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAg                                                           <  2:814500/139‑1 (MQ=255)                                                             aaCAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAg                                                           <  1:109452/139‑1 (MQ=255)                                                                  cagcGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAAt                                                      >  2:1361416/1‑139 (MQ=255)                                                                    gcgcATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAAttt                                                    >  2:1137400/1‑139 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTg                                                                                                                         <  2:1450006/54‑1 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTg                                                                                                                         >  1:1450006/1‑54 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACg                                                                                                                     <  1:507188/58‑1 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACg                                                                                                                     >  2:507188/1‑58 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGt                                                                                                 >  2:115321/1‑78 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGt                                                                                                 <  1:115321/78‑1 (MQ=255)                                                                                    tctctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTa                                    >  1:143617/1‑139 (MQ=255)                                                                                      tctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTa                                                                                                <  1:1655655/77‑1 (MQ=255)                                                                                      tctcGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTa                                                                                                >  2:1655655/1‑77 (MQ=255)                                                                                               agCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAg                         <  2:143617/139‑1 (MQ=255)                                                                                                    gCCTGGAACAGATGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGtt                    <  2:1016373/139‑1 (MQ=255)                                                                                                                tGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGga                                                                             >  1:1373016/1‑70 (MQ=255)                                                                                                                tGCCGGTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGga                                                                             <  2:1373016/70‑1 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAg                         >  1:776641/1‑118 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAg                         <  2:776641/118‑1 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGcc    >  1:1401840/1‑139 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGcc    <  1:1242462/139‑1 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGcc    >  2:339477/1‑139 (MQ=255)                                                                                                                    ggTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGcc    >  1:1786198/1‑139 (MQ=255)                                                                                                                     gTCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGccc   <  1:1361416/139‑1 (MQ=255)                                                                                                                      tCAATGAGTATCTCAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGCCCg  <  1:1137400/139‑1 (MQ=255)                                                                                                                                tctcAACCTTTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCg                                            <  1:1140411/87‑1 (MQ=255)                                                                                                                                tctcAACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCg                                            >  2:1140411/1‑87 (MQ=255)                                                                                                                                    |                                                                                                                             GTATTCCGAAACTGGTCGATAAATTCAAAATCAATCTCGCGCGCCAGTTCCCGACTCGCCAACAGCAGCGCATTCTGGAGGTTTCTCTCGACAGAGCTCGCCTGGAACAGATGCCGGTCAATGAGTATCTCGACCTGTACGTCATTTAAGTAAACGGCGGTAAGGCGTAAGTTCAACAGGAGAGCATTATGTCTTTTAGCGAATTTTATCAGCGTTCGATTAACGAACCGGAGCAGTTCTGGGCCGAGCAGGCCCG  >  NC_000913/352518‑352773

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑