breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,170,734	0	G	T	38.5%	30.5 / 32.1	66	intergenic (‑51/+257)	gatY/fbaB	D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I
*	CP009273	2,178,908	0	T	G	37.5%	59.1 / 11.9	48	intergenic (‑128/+95)	thiM/rcnR	hydoxyethylthiazole kinase/transcriptional repressor of rcnA
*	CP009273	104,042	0	A	T	36.4%	73.2 / 20.4	44	intergenic (+81/‑150)	lpxC/secM	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation
*	CP009273	838,652	0	T	G	34.1%	63.0 / 13.9	44	F289V (TTT→GTT)	rlmF	23S rRNA m(6)A1618 methyltransferase, SAM‑dependent
*	CP009273	104,041	0	G	T	31.8%	53.2 / 14.6	44	intergenic (+80/‑151)	lpxC/secM	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation
*	CP009273	4,234,527	0	C	G	24.1%	182.7 / 10.5	83	L159L (CTG→CTC)	malF	maltose transporter subunit
*	CP009273	104,048	0	A	T	22.9%	108.5 / 13.2	49	intergenic (+87/‑144)	lpxC/secM	UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1203261	40 (0.600)	5 (0.080)	4/238	4.5	11.2%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	CP009273	= 1205058	44 (0.750)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related