Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,233,609	C→T	Q4* (CAG→TAG)	yeiS →	DUF2542 domain‑containing protein YeiS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,233,609	0	C	T	94.1%	46.6 / ‑3.3	17	Q4* (CAG→TAG)	yeiS	DUF2542 domain‑containing protein YeiS
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (11/5);  total (11/6)
Fisher's exact test for biased strand distribution p-value = 3.53e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.89e-01

GCTCAGTGTTATGCCGTACCGTCACCGAAAGATATGCTGTCAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTACAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGACTCTTTTTCGCTTATATGGTGGCATATATCGGCTTCGGAATTTTATCTATCGGCATGATTGTTTATCTTATTTTCTATC  >  NC_000913/2233367‑2233834                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                   gCTCAGTGTAATGCCGTAACGTCACCGAAAGATATGCTGTCAGTACGTATTCGTGAATCTGCCGACCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTCGGGCCGCTGGTCCCTATTCCGGCTCTGCAACAGGTACCGGAAGATGCGCAGGGGTATCCCGCAGTCACACCCGCACAGTTACTTGTATTACAAAAGAAAAAAGGAAAGTAGTTATGGATGTATAGTAGttt                                                                                                                                                                                                                            >  2:266695/1‑251 (MQ=255)        gtTATTCCTTACCGTCACCGAAAGATATGCTGTAAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGTCCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGTCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTc                                                                                                                                                                                                                      <  1:230678/250‑1 (MQ=255)                          cGAAAGATATGCTGTCAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGCACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGAATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCtt                                                                                                                                                                                                    >  1:172756/1‑250 (MQ=255)                                     cTGTCAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATAttt                                                                                                                                                                                        >  1:224693/1‑251 (MQ=255)                                      tGTCAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTCACCGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGAACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGACCAGTTACTTGAATTAAAAAAGAAACAAGGAAAGAAGTTATGGATGTATAGCCGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATAtttt                                                                                                                                                                                       >  2:281661/1‑251 (MQ=255)                                                                gccCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTgg                                                                                                                                                            >  1:158331/1‑251 (MQ=255)                                                                          gTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGT‑ATGGATGTATTGCAGTTTTTTGTCGTTGCCGGTTTTTTTCTTATTCCGATATTTTTTTTCCGGCGA‑GCATGGAAAGGCTGgcgcggcggccc                                                                                                                                                 >  1:147225/1‑244 (MQ=255)                                                                           tGCGCTGGCTGAACTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGgcgc                                                                                                                                                 >  1:220588/1‑251 (MQ=255)                                                                            gcgctgtcggtccTTTATATTTTTAAAATGGAACCGCGTTTTTGAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGcgcg                                                                                                                                                <  2:158331/240‑1 (MQ=255)                                                                                tggatgACCTTTATATTTTTAAACGTGAAAAGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGCAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAACGGCTGGCGCGCCGGCGCGATTg                                                                                                                                            >  2:53295/5‑251 (MQ=255)                                                                                                  ttaaacttgaccctgtttttttAGGGCCGCTGGTCCTTATCCCGGCTAAGCACCAGGTCCCGGAAGATTCGCAGGGATTACCCGCCGTCACACCCGAACAGTTACTGGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTGTTGTCGTTGCCGTTTTGTGCCGTATCCCGATATTTGGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAAt                                                                                                                           <  2:46464/234‑1 (MQ=255)                                                                                                                    ttttAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGTTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTACAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTAt                                                                                                         <  1:128042/250‑1 (MQ=255)                                                                                                                                                 aggccccAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTGGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGGCTCttg                                                                           <  2:30368/246‑2 (MQ=255)                                                                                                                                                                          aGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAAAAAGGAAAGAAGTTATGGCTGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAACATGCAACGGAACCGGTGTATGTCTGGCGTGAAAAAAATCCCGGACTCTTTTTCGCTTATATGGGTGCatatattg                                                  >  2:276725/1‑249 (MQ=255)                                                                                                                                                                                                            tGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGACTCTTTTTCGCTTATATGGTGGCATATATCGGCTTCGGAATTTTATCTATCGGCATGATTGttt                 <  1:81786/250‑1 (MQ=255)                                                                                                                                                                                                                      aaGAAACAAGGAAAGTAGTTATGGATGTATCGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGACTCTTTTTCGCTTATATGGTGGCATATATCGGCTTCGGAATTTTATCTATCGGCATGATTGTTTATCTTAttttt      >  1:86975/1‑250 (MQ=255)                                                                                                                                                                                                                          aaCAAGGAAAGTAGTTATGGATGTATAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGACTCTTTTTCGCTTATATGGTGGCATATATCGGCTTCGGAATTTTATCTATCGGCATGTTTGTTTATCTTATTTTTTAtt  >  2:129116/1‑250 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                   GCTCAGTGTTATGCCGTACCGTCACCGAAAGATATGCTGTCAGTACGTATTCGTGAATTTGCCGCCCGTTTCGGTGCGCTGGCTGACCTTTATATTTTTAAACGTGAACCGCGTTTTTTAGGGCCGCTGGTCCCTATTCCGGCTATGCACCAGGTACCGGAAGATGCGCAGGGGTATCCCGCCGTCACACCCGAACAGTTACTTGAATTACAAAAGAAACAAGGAAAGTAGTTATGGATGTACAGCAGTTTTTTGTCGTTGCCGTTTTTTTCCTTATCCCGATATTTTGTTTCCG‑CGAAGCATGGAAAGGCTGGCGCGCAGGCGCGATTGATAAACGGGTTAAAAATGCACCGGAACCGGTGTATGTCTGGCGAGCAAAAAATCCCGGACTCTTTTTCGCTTATATGGTGGCATATATCGGCTTCGGAATTTTATCTATCGGCATGATTGTTTATCTTATTTTCTATC  >  NC_000913/2233367‑2233834

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑