Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,215,491	C→A	A5E (GCA→GAA)	aceB →	malate synthase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,215,491	0	C	A	97.9%	165.3 / ‑2.8	48	A5E (GCA→GAA)	aceB	malate synthase A
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base A (30/17);  total (31/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.78e-01

GAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGCAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACTTCTGGCA  >  NC_000913/4215388‑4215624                                                                                                        |                                                                                                                                      gAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTa                                                                                                   >  2:6095/1‑140 (MQ=255)            gTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAgg                                                                                        >  1:280286/1‑140 (MQ=255)              tgtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGgag                                                                                      >  2:898442/1‑140 (MQ=255)              tgtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGgag                                                                                      >  1:415833/1‑140 (MQ=255)                tgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGaa                                                                                    >  1:197623/1‑140 (MQ=255)                 gCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAg                                                                                   >  2:175551/1‑140 (MQ=255)                  cTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGc                                                                                  >  1:164025/1‑140 (MQ=255)                     aaCGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCTCAAGGCCGTATGGCGAGCAGGAGAAGCaaa                                                                               >  2:672158/1‑140 (MQ=255)                     aaCGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCaaa                                                                               >  2:733570/1‑140 (MQ=255)                     aaCGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCaaa                                                                               >  2:711957/1‑140 (MQ=255)                     aaCGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCaaa                                                                               >  1:1016390/1‑140 (MQ=255)                               gCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGc                                                                     <  2:164025/140‑1 (MQ=255)                                  caACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGa                                                                  >  1:349727/1‑140 (MQ=255)                                    aCGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAg                                                                <  2:713128/140‑1 (MQ=255)                                    aCGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAg                                                                >  1:877841/1‑140 (MQ=255)                                        tCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGt                                                            >  2:22733/1‑140 (MQ=255)                                           ttCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGa                                                         <  1:733570/140‑1 (MQ=255)                                             cGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTa                                                           <  2:817921/136‑1 (MQ=255)                                             cGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTa                                                           >  1:817921/1‑136 (MQ=255)                                                     gTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTctgact                                               >  1:447842/1‑140 (MQ=255)                                                           aaGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTg                                         <  2:280286/140‑1 (MQ=255)                                                              ttttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTg                                      <  1:672158/140‑1 (MQ=255)                                                                ttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTgg                                        <  1:199969/136‑1 (MQ=255)                                                                ttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTgg                                        >  2:199969/1‑136 (MQ=255)                                                                ttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGAc                                    >  1:1060155/1‑140 (MQ=255)                                                                ttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGAc                                    >  2:198023/1‑140 (MQ=255)                                                                ttCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGAc                                    >  1:65978/1‑140 (MQ=255)                                                                   ggATCCATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCa                                 <  2:415833/140‑1 (MQ=255)                                                                       ccATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCAtttt                             >  1:149263/1‑140 (MQ=255)                                                                        cATGACGAGGAGCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTa                            >  1:137879/1‑140 (MQ=255)                                                                              gaggagCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCcac                      >  2:392166/1‑140 (MQ=255)                                                                               aggagCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCcaca                     <  2:349727/140‑1 (MQ=255)                                                                               aggagCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCcaca                     <  2:447842/140‑1 (MQ=255)                                                                                ggagCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCca                       <  1:826363/137‑1 (MQ=255)                                                                                ggagCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCca                       >  2:826363/1‑137 (MQ=255)                                                                                  agCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACg                  >  2:738574/1‑140 (MQ=255)                                                                                  agCTGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACg                  <  1:198023/140‑1 (MQ=255)                                                                                     tGCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCaa               >  2:373932/1‑140 (MQ=255)                                                                                      gCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAAt              <  1:738574/140‑1 (MQ=255)                                                                                      gCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAAt              <  2:65978/140‑1 (MQ=255)                                                                                      gCACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAAt              <  2:197623/140‑1 (MQ=255)                                                                                       cACGATGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATa             >  1:722629/1‑140 (MQ=255)                                                                                            tGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAAt              <  1:42/134‑1 (MQ=255)                                                                                            tGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAAt              >  2:42/1‑134 (MQ=255)                                                                                            tGACTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACtt        >  1:525977/1‑140 (MQ=255)                                                                                               cTGAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACTTCTg     <  2:877841/140‑1 (MQ=255)                                                                                                 gAACAGGAAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACTTCTGGc   >  1:89690/1‑140 (MQ=255)                                                                                                  aaCAGGCAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACTTCTGGCa  >  1:866782/1‑140 (MQ=255)                                                                                                        |                                                                                                                                      GAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGACTGAACAGGCAACAACAACCGATGAACTGGCTTTCACAAGGCCGTATGGCGAGCAGGAGAAGCAAATTCTTACTGCCGAAGCGGTAGAATTTCTGACTGAGCTGGTGACGCATTTTACGCCACAACGCAATAAACTTCTGGCA  >  NC_000913/4215388‑4215624

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑