Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,566,600	C→T	*478* (TAG→TAA)	glgA ←	glycogen synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,566,600	0	C	T	100.0%	185.8 / NA	58	*478* (TAG→TAA)	glgA	glycogen synthase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/25);  total (33/25)

CGACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCACGTCGAATAGCC  >  NC_000913/3566476‑3566735                                                                                                                             |                                                                                                                                        cgacgaCCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATa                                                                                                                           >  2:126289/1‑139 (MQ=255)   acgacCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGt                                                                                                                         <  2:610758/139‑1 (MQ=255)      acCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTaaa                                                                                                                      >  1:1037268/1‑139 (MQ=255)          ggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTc                                                                                                                  >  2:117908/1‑139 (MQ=255)                                   cTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGc                                                                                         >  1:786786/1‑139 (MQ=255)                                             aTAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTcgccgc                                                                                                <  2:261780/122‑1 (MQ=255)                                             aTAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTcgccgc                                                                                                >  1:261780/1‑122 (MQ=255)                                                 agTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCt                                                                                                                   <  1:156291/99‑1 (MQ=255)                                                 agTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCt                                                                                                                   >  2:156291/1‑99 (MQ=255)                                                     cTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGcc                                                                       >  1:11757/1‑139 (MQ=255)                                                             cTTCTACGCTAAGCGTGGTCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGcc                                                                                        <  1:993109/114‑1 (MQ=255)                                                             cTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGcc                                                                                        >  2:993109/1‑114 (MQ=255)                                                                cTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGc                                                                                         <  2:726385/110‑1 (MQ=255)                                                                cTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGc                                                                                         >  1:726385/1‑110 (MQ=255)                                                                     cTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTGGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGca                                                       <  2:206072/139‑1 (MQ=255)                                                                     cTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGca                                                       <  2:1037268/139‑1 (MQ=255)                                                                          cGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCa                                                                                                                                  >  2:259596/1‑59 (MQ=255)                                                                          cGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCa                                                                                                                                  <  1:259596/59‑1 (MQ=255)                                                                             gggCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGc                                               <  2:319639/139‑1 (MQ=255)                                                                                  aTGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAg                                                                                                                                <  2:331253/53‑1 (MQ=255)                                                                                  aTGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAg                                                                                                                                >  1:331253/1‑53 (MQ=255)                                                                                  aTGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAg                                          >  2:767768/1‑139 (MQ=255)                                                                                       tatGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAg                                     <  1:82482/139‑1 (MQ=255)                                                                                         tGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCcgcg                                                                                               <  1:493307/79‑1 (MQ=255)                                                                                         tGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCcgcg                                                                                               >  2:493307/1‑79 (MQ=255)                                                                                             aaCGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTGCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGCCggg                               >  2:704832/1‑139 (MQ=255)                                                                                              aCGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGa                              <  1:117908/139‑1 (MQ=255)                                                                                               cGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCTCGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGc                                                                        <  2:686235/96‑1 (MQ=255)                                                                                               cGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGc                                                                        >  2:272967/1‑96 (MQ=255)                                                                                               cGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGc                                                                        <  1:272967/96‑1 (MQ=255)                                                                                               cGGAGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTACCAGCTAAAATCCATTGc                                                                        >  1:686235/1‑96 (MQ=255)                                                                                                  aGCATTCATATAGGTGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGAATTAGCCGAGAGCTGACAGGTAAAATCCATTGCTATAGCCTGACGTTGGACAAACAGCAACAGTGAAGGAAGGGaaaaa                          >  2:776541/1‑135 (MQ=255)                                                                                                  aGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGa                                       >  1:927272/1‑126 (MQ=255)                                                                                                  aGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGa                                       <  2:927272/126‑1 (MQ=255)                                                                                                  aGCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACcac                          >  1:629666/1‑139 (MQ=255)                                                                                                   gCATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTCAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGAGAAGGCCGAGacaaca                         >  2:347231/1‑139 (MQ=255)                                                                                                   gCATTCACACAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCAACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGCGAAGGTCGGGACcaca                         >  2:872092/1‑139 (MQ=255)                                                                                                    cATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACca                           <  1:366281/136‑1 (MQ=255)                                                                                                    cATTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACca                           >  2:366281/1‑136 (MQ=255)                                                                                                     aTTCATATAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGt                       >  2:799480/1‑139 (MQ=255)                                                                                                         atatAGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACaa                   >  1:586577/1‑139 (MQ=255)                                                                                                           ataGGCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACaaaa                 <  1:767768/139‑1 (MQ=255)                                                                                                              ggCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCa              >  2:226258/1‑139 (MQ=255)                                                                                                               gCGTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCAc             >  1:1037313/1‑139 (MQ=255)                                                                                                                 gTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCa                                                                      <  2:102053/80‑1 (MQ=255)                                                                                                                 gTTTCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCa                                                                      >  1:102053/1‑80 (MQ=255)                                                                                                                   ttCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGa                                   >  2:161681/1‑113 (MQ=255)                                                                                                                   ttCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGa                                   <  1:161681/113‑1 (MQ=255)                                                                                                                    tcttGAAAATTGTTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGcc                                                                                        >  2:645512/4‑59 (MQ=255)                                                                                                                    tCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGcc                                                                                        <  1:645512/59‑1 (MQ=255)                                                                                                                    tCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGAc                             >  2:106696/1‑118 (MQ=255)                                                                                                                    tCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGAc                             <  1:106696/118‑1 (MQ=255)                                                                                                                    tCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAGAAGCACGTCGa        >  2:454042/1‑139 (MQ=255)                                                                                                                    tCCTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCACGTCGa        >  2:1028461/1‑139 (MQ=255)                                                                                                                     ccTGAAAATTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCACGTCGaa       <  1:1028461/139‑1 (MQ=255)                                                                                                                         aaaaTTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGa                                       <  2:1009023/103‑1 (MQ=255)                                                                                                                         aaaaTTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGa                                       >  1:1009023/1‑103 (MQ=255)                                                                                                                          aaaTTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCACGTCGAATAGcc  <  2:91101/139‑1 (MQ=255)                                                                                                                             |                                                                                                                                        CGACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGAGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGGTACGACTTCGCCGCGACCTGCCAGCTAAAATCCATTGCCATAGCCTGACGTTGCACAAACCGCCACAGTGAAGGACGGGACCACAGTACAAAAGCACGTCGAATAGCC  >  NC_000913/3566476‑3566735

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: ‑