Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	352,317	A→C	D368A (GAC→GCC)	prpD →	2‑methylcitrate dehydratase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	352,317	0	A	C	100.0%	122.0 / NA	37	D368A (GAC→GCC)	prpD	2‑methylcitrate dehydratase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (20/17);  total (20/17)

CGCACCCACGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGACAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATGCCAT  >  NC_000913/352181‑352434                                                                                                                                         |                                                                                                                      cGCACCCACGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCaa                                                                                                                    >  1:481691/1‑140 (MQ=255)  gCACCCACGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGGGCTTAACGGCGGCAGATTACGAGGCCAAc                                                                                                                   >  1:229832/1‑140 (MQ=255)   cACCCACGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACg                                                                                                                  >  2:39788/1‑140 (MQ=255)         cGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTgcgc                                                                                                            <  2:478010/140‑1 (MQ=255)         cGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGAGGCGATCCCGCTGCTATTCGTGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTgcgc                                                                                                            >  1:657043/1‑140 (MQ=255)              ccTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGAt                                                                                                       <  1:348871/140‑1 (MQ=255)                   aTTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACg                                                                                                  <  2:355327/140‑1 (MQ=255)                     tCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTAAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCa                                                                                                <  1:633909/140‑1 (MQ=255)                            atcGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGCTTAAGAGGCCAACGTTACGCAAGATAAACGCATTGACGc                                                                                         >  2:247170/1‑140 (MQ=255)                                aCAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTg                                                                                     <  1:407385/140‑1 (MQ=255)                                 cAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTgc                                                                                    <  2:58972/140‑1 (MQ=255)                                    aaaaGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGcgcg                                                                                 <  2:536194/140‑1 (MQ=255)                                      aaGGGCCGCTCAATATCCCGGCGGAGCGCTATCACTGTATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCgag                                                                               <  1:247170/140‑1 (MQ=255)                                      aaGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAGCGTTGCGCAAGATAAACGCATTGACGCCCTGCGCgag                                                                               <  2:68071/140‑1 (MQ=255)                                           ccGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGAt                                                                          >  1:441812/1‑140 (MQ=255)                                              cTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCaa                                                                       <  2:441812/140‑1 (MQ=255)                                              cTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCaa                                                                       <  1:513990/140‑1 (MQ=255)                                                           cAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCACGATAAACGCATTGACGTCCTGCGCGGGAAGATCAATTGCTTTGAAGAt                                                          >  2:263677/1‑140 (MQ=255)                                                           cAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGAt                                                          >  2:638430/1‑140 (MQ=255)                                                           cAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGAt                                                          >  2:115570/1‑140 (MQ=255)                                                           cAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGAt                                                          >  2:378835/1‑140 (MQ=255)                                                                        cTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCg                                             <  1:40933/140‑1 (MQ=255)                                                                          gCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAAATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCt                                           >  1:355421/1‑140 (MQ=255)                                                                            aTTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGa                                         <  1:647312/140‑1 (MQ=255)                                                                               cAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTa                                      >  2:90856/1‑140 (MQ=255)                                                                                aGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTAc                                     >  2:486963/1‑140 (MQ=255)                                                                                  tACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCa                                   <  1:127848/140‑1 (MQ=255)                                                                                       ggtggCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGAcc                              >  1:443398/1‑140 (MQ=255)                                                                                          ggCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCgg                           >  1:365180/1‑140 (MQ=255)                                                                                            cGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGTCATTTAACGCTGAGTACCACGACCCGGaa                         >  1:216104/1‑140 (MQ=255)                                                                                              aTCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGGAGATCCGGCATTTACCGCTGACTACCACGACCCGGaaaa                       >  2:214314/1‑140 (MQ=255)                                                                                              aTCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCCTTTCCCGCTGACTACCACGACCCGGaaaa                       >  1:252049/1‑140 (MQ=255)                                                                                                            cGGGCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGG‑AAAACGCGCCATCGCCaa        <  2:443398/140‑1 (MQ=255)                                                                                                              ggCGCTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAAt       >  1:621548/1‑140 (MQ=255)                                                                                                               gcgcTTAGCGGCGGCAGATGACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATg      >  2:387366/1‑140 (MQ=255)                                                                                                               gcgcTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATg      >  2:143421/1‑140 (MQ=255)                                                                                                                  cTTAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATGCCa   <  2:657043/140‑1 (MQ=255)                                                                                                                   ttAACGGCGGCAGATTACGAGGCCAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATGCCAt  <  1:638430/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                      CGCACCCACGAAGCCTGTATTCGCATCATCGACAAAAAAGGGCCGCTCAATAACCCGGCAGACCGCGATCACTGCATTCAGTACATGGTGGCGATCCCGCTGCTATTCGGGCGCTTAACGGCGGCAGATTACGAGGACAACGTTGCGCAAGATAAACGCATTGACGCCCTGCGCGAGAAGATCAATTGCTTTGAAGATCCGGCATTTACCGCTGACTACCACGACCCGGAAAAACGCGCCATCGCCAATGCCAT  >  NC_000913/352181‑352434

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑