breseq  version 0.29.0  revision 8f9c342918e4 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 276 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	436,516	0	C	A	55.8%	8.7 / 50.1	43	Q295K (CAA→AAA)	thiL	thiamine monophosphate kinase
*	NC_000913	4,610,466	0	T	G	50.9%	66.8 / 89.4	53	G351G (GGT→GGG)	prfC	peptide chain release factor RF‑3
*	NC_000913	357,890	0	C	A	50.0%	22.9 / 22.5	40	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	941,713	0	T	G	50.0%	68.1 / 23.2	56	V252G (GTG→GGG)	dmsA	dimethyl sulfoxide reductase, anaerobic, subunit A
*	NC_000913	3,601,176	0	T	C	47.7%	40.8 / 24.6	44	E304G (GAA→GGA)	ftsX	putative ABC transporter permease
*	NC_000913	357,880	0	T	C	47.4%	38.9 / 13.0	39	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	1,222,596	0	G	A	47.4%	53.0 / 38.3	57	F13F (TTC→TTT)	ymgD	uncharacterized protein
*	NC_000913	3,443,277	0	A	C	47.2%	88.9 / 14.8	53	V274G (GTA→GGA)	secY	preprotein translocase membrane subunit
*	NC_000913	1,312,200	0	G	A	46.9%	50.3 / 25.8	49	T16I (ACT→ATT)	yciA	acyl‑CoA esterase
*	NC_000913	3,717,014	0	T	G	46.9%	76.4 / 10.1	49	G156G (GGT→GGG)	yiaD	multicopy suppressor of bamB; outer membrane lipoprotein
*	NC_000913	2,252,646	0	T	G	45.8%	71.0 / 10.7	49	V316G (GTA→GGA)	yeiI	putative kinase
*	NC_000913	436,497	0	A	C	45.0%	58.5 / 10.9	41	V288V (GTA→GTC)	thiL	thiamine monophosphate kinase
*	NC_000913	2,148,330	0	T	G	44.6%	108.4 / 14.5	65	G219G (GGT→GGG)	yegD	Hsp70 chaperone family protein
*	NC_000913	1,153,573	0	T	G	44.1%	104.6 / 36.9	68	Y92D (TAC→GAC)	pabC	4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
*	NC_000913	1,435,727	0	G	A	43.5%	92.4 / 27.4	62	intergenic (‑108/+33)	uspF/ompN	stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific
*	NC_000913	354,288	0	T	G	43.5%	68.8 / 10.5	46	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	2,265,639	0	A	C	42.6%	96.6 / 10.0	55	T64P (ACC→CCC)	yeiP	elongation factor P‑like protein
*	NC_000913	328,803	0	T	G	42.5%	65.5 / 30.4	47	T178P (ACC→CCC)	betI	choline‑inducible betIBA‑betT divergent operon transcriptional repressor
*	NC_000913	4,536,197	0	A	T	42.3%	68.3 / 37.1	52	intergenic (+166/+417)	yjhR/nanS	pseudogene, helicase family; putative frameshift suppressor/9‑O‑acetyl N‑acetylneuraminic acid esterase
*	NC_000913	366,526	0	T	G	42.1%	107.8 / 11.2	57	T329P (ACC→CCC)	lacI	lactose‑inducible lac operon transcriptional repressor

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4542682 =	57 (0.930)	3 (0.050)	3/280	11.6	4.9%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	62 (1.080)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)