Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	78,533	A→C	M305L (ATG→CTG)	setA →	sugar exporter SetA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	78,533	0	A	C	89.3%	61.6 / ‑1.0	28	M305L (ATG→CTG)	setA	sugar exporter SetA
Reads supporting (aligned to +/- strand):  ref base A (2/1);  new base C (11/14);  total (13/15)
Fisher's exact test for biased strand distribution p-value = 5.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGCCTCGACGTTAATGTGGACCTGCAACACCATGTACATTATTGATATGCCGTTGTGGATCAGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGACTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTCTTTAATAGCCGTATGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAGCAATTGCACAAAGTTGGGGGCACTTTGCTGTCTACTGGGTAATTGCGGTTATTTCTGTTGTCGCATTATTTTT  >  NC_000913/78286‑78774                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                   cGCCTCGACGTTAATGTGGACCTGCAACACCATGTACATTATTGATATGCCGTTGTGGATCAGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAACTGGGCTGGGAAAACCAGCAATGATTCTGGCTGGCTACTATGTCCAACGTTATGGGAAGCGGCGCATGATGGTCATAGGCGGGGCGGCAGGGGTAATGTTTTACACCGGATTGATTTTATTTCATAGCCGTATgg                                                                                                                                                                                                                                                 >  1:242053/1‑251 (MQ=255)         cGTTAATGTGGACCTGCAACACCATGTACATTATTGATATGCCGTTGTGGATCAGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTtgatg                                                                                                                                                                                                                                         <  1:287422/251‑1 (MQ=255)                                               atggcGTTGTGGATCAGTAGCGAGCTAGGAGTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGGTTGACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATTACGCTTCAATTTTTTAACGCT‑GGATTTATCGGCAttg                                                                                                                                                                                                   <  2:301340/246‑1 (MQ=255)                                                 gCCGTTGTGGATCAGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCAttgtt                                                                                                                                                                                                 <  1:433860/250‑1 (MQ=255)                                                          gATCAGTAGCGAGTTAGGAGTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGTCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTg                                                                                                                                                                                       <  2:29556/251‑1 (MQ=255)                                                              aGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGAt                                                                                                                                                                                   <  1:257666/251‑1 (MQ=255)                                                                   cGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTAt                                                                                                                                                                              <  1:435953/251‑1 (MQ=255)                                                                                 cAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCCATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGGATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCC‑GTATTTATCGGGATTGTTGCGGGGATTGGGGTGCTATGGTTTCAGGAttt                                                                                                                                                                 >  1:221536/1‑250 (MQ=255)                                                                                             cGGGTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAaga                                                                                                                                                    <  1:231498/251‑1 (MQ=255)                                                                                              gggTTTCCTGATGGGGACGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTTGCGTTGGTGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTTTTTCGGGGTTTGGGATGCTATGGGTTTAGGATTTGATGCCTggtag                                                                                                                                                     >  2:221113/1‑246 (MQ=255)                                                                                                gTTTCCTGATGTGGACGTCAGCTTGACTGTAAATCCCAGCAATGATTCTGGCTGGCTACGAGGACAAACGTTATGGTAAGCGGCGAATGAGTGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTCTTTAATAGCCGTATGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGTCATTGTTGCGGGTATGGGGATGCTATGGTTTCAGGATTTAATTCCTGGAAGAGCg                                                                                                                                                 <  2:35414/251‑1 (MQ=255)                                                                                                              aCGGCAGCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTaccac                                                                                                                                   <  1:414520/251‑1 (MQ=255)                                                                                                                    gCTGGTCTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCGGCTACCACCTTAtt                                                                                                                             >  1:77185/1‑251 (MQ=255)                                                                                                                      tggtctggaAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTAttt                                                                                                                            >  1:459080/5‑250 (MQ=255)                                                                                                                          ctggaAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGCTTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTa                                                                                                                        >  1:76069/1‑250 (MQ=255)                                                                                                                            ggaAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGACGGGGGACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATTACTCTTCAACTTTTTATCGCTTGT‑TTTATCGGCATTGTTTGGGGGATTGGTGTGCTATGGTTTCCGGATTTAATGCCTGGAGGAGCGGGGGGAGCTCCCACCTTTTTTACTAAc                                                                                                                      >  2:256020/1‑250 (MQ=255)                                                                                                                               aaTACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGCAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACCCCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGCGCGGGGGCAGCTACCACCTTATTTACTAACAGt                                                                                                                   >  1:144088/1‑250 (MQ=255)                                                                                                                                        aaTGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACa                                                                                                                     <  2:264840/239‑1 (MQ=255)                                                                                                                                        aaTGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACa                                                                                                                     >  1:264840/1‑239 (MQ=255)                                                                                                                                          tGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCggg                                                                                                       >  1:31588/1‑251 (MQ=255)                                                                                                                                                                cAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTAtt                                                                                  <  2:49674/250‑1 (MQ=255)                                                                                                                                                                       tATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAg                                                                           <  1:255584/250‑1 (MQ=255)                                                                                                                                                                       tATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAGc                                                                          >  1:96658/1‑251 (MQ=255)                                                                                                                                                                             aaGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTCTTTAATAGCCGTATGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCCGGGAGCAATTGc                                                                    >  1:317083/1‑251 (MQ=255)                                                                                                                                                                                   ggAATGATGTGCATATCTGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTATTTCATAGCCGTCTGTCGTGGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAGCAATGGCACAAAg                                                              <  2:329411/250‑1 (MQ=255)                                                                                                                                                                                                         cggcAGGAGTACTGTTTTACAACGGATTGATTTTATTTCATAGCCGTCTGGCGGTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGAGGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCg                                                                                                         <  1:328458/186‑1 (MQ=255)                                                                                                                                                                                                                                             ttcaTAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGAATTGTTGCGGGTATTGAGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCAACCACCTTATTTACTAACAGCATTTCTACCGGGGTAATTCTGGCTGGCGTTCTTCAGGGAGCAATTGCACAAAGTTGGGGGCACTTTGCTGTCTACTGGGTAATTGCGGTTATTTCTGTTATCGCATTAttt    >  1:282906/4‑251 (MQ=255)                                                                                                                                                                                                                                               caTAGCCGTCTGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAGCAATTGCACAAAGTTGGGGGCACTTTGCTGTCTACTGGGTAATTGCGGTTATTTCTGTTATCGCATTAttttt  <  1:142829/250‑1 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                   CGCCTCGACGTTAATGTGGACCTGCAACACCATGTACATTATTGATATGCCGTTGTGGATCAGTAGCGAGTTAGGATTGCCAGACAAACTGGCGGGTTTCCTGATGGGGACGGCAGCTGGACTGGAAATACCAGCAATGATTCTGGCTGGCTACTATGTCAAACGTTATGGTAAGCGGCGAATGATGGTCATAGCAGTGGCGGCAGGAGTACTGTTTTACACCGGATTGATTTTCTTTAATAGCCGTATGGCGTTGATGACGCTGCAACTTTTTAACGCT‑GTATTTATCGGCATTGTTGCGGGTATTGGGATGCTATGGTTTCAGGATTTAATGCCTGGAAGAGCGGGGGCAGCTACCACCTTATTTACTAACAGTATTTCTACCGGGGTAATTCTGGCTGGCGTTATTCAGGGAGCAATTGCACAAAGTTGGGGGCACTTTGCTGTCTACTGGGTAATTGCGGTTATTTCTGTTGTCGCATTATTTTT  >  NC_000913/78286‑78774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑