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 475 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	925,900	0	A	G	53.6%	74.8 / 97.2	70	noncoding (72/88 nt)	serW	tRNA‑Ser
*	NC_000913	599,576	0	T	G	50.0%	89.9 / 21.5	70	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	1,413,735	0	A	T	48.0%	82.5 / 56.1	75	Y2* (TAT→TAA)	ydaC	DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein
*	NC_000913	3,508,662	0	T	A	47.6%	65.3 / 34.7	63	E384D (GAA→GAT)	yhfW	phosphopentomutase‑related metalloenzyme superfamily protein
*	NC_000913	1,222,233	0	G	A	47.4%	55.7 / 30.8	57	pseudogene (60/75 nt)	ycgH	pseudogene; putative ATP‑binding component of a transport system
*	NC_000913	2,984,441	0	A	C	47.3%	79.6 / 20.7	55	G384G (GGT→GGG)	yqeF	short chain acyltransferase
*	NC_000913	2,252,646	0	T	G	47.1%	107.7 / 16.4	72	V316G (GTA→GGA)	yeiI	putative kinase
*	NC_000913	29,496	0	T	A	47.0%	71.9 / 45.4	66	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	3,001,164	0	A	C	46.2%	75.7 / 22.0	52	T274P (ACC→CCC)	xdhA	xanthine dehydrogenase, molybdenum binding subunit
*	NC_000913	2,578,143	0	A	C	44.4%	94.2 / 26.4	63	L79V (TTA→GTA)	maeB	malic enzyme: putative oxidoreductase/phosphotransacetylase
*	NC_000913	3,508,657	0	A	G	44.4%	75.2 / 18.4	63	F386S (TTC→TCC)	yhfW	phosphopentomutase‑related metalloenzyme superfamily protein
*	NC_000913	436,516	0	C	A	44.1%	85.3 / 25.4	59	Q295K (CAA→AAA)	thiL	thiamine monophosphate kinase
*	NC_000913	2,421,443	0	A	C	44.1%	99.8 / 21.2	61	Y40S (TAC→TCC)	folX	D‑erythro‑7,8‑dihydroneopterin triphosphate 2'‑epimerase and dihydroneopterin aldolase
*	NC_000913	3,206,435	0	C	T	44.1%	56.9 / 36.9	59	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
*	NC_000913	925,912	0	G	C	43.5%	122.0 / 29.4	70	noncoding (60/88 nt)	serW	tRNA‑Ser
*	NC_000913	1,822,197	0	A	C	43.1%	101.7 / 14.9	65	G20G (GGT→GGG)	osmE	osmotically‑inducible lipoprotein
*	NC_000913	2,511,772	0	A	C	43.1%	130.5 / 22.0	72	V312G (GTG→GGG)	mntH	manganese/divalent cation transporter
*	NC_000913	2,147,733	0	T	G	42.5%	113.4 / 15.6	73	G20G (GGT→GGG)	yegD	Hsp70 chaperone family protein
*	NC_000913	3,133,302	0	T	G	42.2%	130.1 / 14.4	71	H219P (CAC→CCC)	yghS	putative ATP‑binding protein
*	NC_000913	4,538,109	0	A	C	42.2%	114.1 / 22.0	71	G219G (GGT→GGG)	nanM	N‑acetylneuraminic acid mutarotase

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 =	82 (1.110)	3 (0.040)	3/280	14.1	3.5%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	90 (1.300)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)