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
*	NC_000913	4,604,344	0	C	T	47.6%	18.4 / 35.5	42	S62F (TCT→TTT)	bglJ	DNA‑binding transcriptional regulator BglJ
*	NC_000913	4,111,747	0	G	T	35.3%	64.6 / 20.8	34	N156K (AAC→AAA)	yiiQ	DUF1454 domain‑containing protein YiiQ
*	NC_000913	1,491,103	0	A	C	30.9%	68.6 / 11.5	42	T68P (ACC→CCC)	cybB	cytochrome b561
*	NC_000913	29,496	0	T	A	29.7%	73.3 / 15.7	37	intergenic (+301/‑155)	dapB/carA	4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha
*	NC_000913	2,326,450	0	T	G	27.3%	79.0 / 18.9	44	G114G (GGT→GGG)	atoB	acetyl‑CoA acetyltransferase
*	NC_000913	650,809	0	T	G	26.2%	73.9 / 12.0	42	T350P (ACC→CCC)	citC	citrate lyase synthetase
*	NC_000913	332,991	0	G	T	21.7%	157.7 / 12.3	60	L207F (TTG→TTT)	pdeL	DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL
*	NC_000913	646,747	0	T	G	21.1%	79.1 / 11.2	38	T255P (ACC→CCC)	citG	triphosphoribosyl‑dephospho‑CoA synthase

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	= 4542690	30 (0.530)	7 (0.130)	7/260	3.8	18.7%	intergenic (+57/‑425)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	= 4542986	33 (0.620)					intergenic (+353/‑129)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
*	?	NC_000913	4542682 =	29 (0.510)	8 (0.150)	7/260	3.8	20.5%	intergenic (+49/‑433)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit
	?	NC_000913	4542996 =	35 (0.660)					intergenic (+363/‑119)	fimE/fimA	regulator for fimA/type 1 fimbriae major subunit