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 293 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	45.5%	27.8 / 26.5	44	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	5,159	0	G	A	45.3%	69.1 / 35.5	64	intergenic (+139/‑75)	thrC/yaaX	L‑threonine synthase/DUF2502 family putative periplasmic protein
*	NC_000913	1,478,324	0	T	G	44.9%	122.2 / 12.6	70	G33G (GGT→GGG)	ynbB	putative CDP‑diglyceride synthase
*	NC_000913	2,326,450	0	T	G	43.9%	145.0 / 14.2	82	G114G (GGT→GGG)	atoB	acetyl‑CoA acetyltransferase
*	NC_000913	1,621,118	0	A	C	43.3%	106.1 / 13.4	62	V7G (GTG→GGG)	eamA	cysteine and O‑acetyl‑L‑serine efflux system
*	NC_000913	357,880	0	T	C	42.5%	62.5 / 10.1	47	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,337,723	0	A	C	42.4%	107.5 / 23.8	66	G566G (GGT→GGG)	gyrA	DNA gyrase (type II topoisomerase), subunit A
*	NC_000913	345,328	0	C	A	40.2%	129.8 / 39.5	82	intergenic (+337/‑76)	yahL/yahM	uncharacterized protein/uncharacterized protein
*	NC_000913	1,613,904	0	A	C	40.0%	102.5 / 14.0	60	V267G (GTA→GGA)	sad	succinate semialdehyde dehydrogenase, NAD(P)+‑dependent
*	NC_000913	3,026,941	0	A	C	39.7%	121.6 / 18.2	73	E392D (GAA→GAC)	guaD	guanine deaminase
*	NC_000913	357,875	0	A	T	39.6%	70.7 / 13.5	48	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	1,312,227	0	A	G	39.3%	102.5 / 10.6	56	V7A (GTC→GCC)	yciA	acyl‑CoA esterase
*	NC_000913	2,578,143	0	A	C	39.2%	124.7 / 31.6	74	L79V (TTA→GTA)	maeB	malic enzyme: putative oxidoreductase/phosphotransacetylase
*	NC_000913	2,421,443	0	A	C	39.1%	123.6 / 15.8	69	Y40S (TAC→TCC)	folX	D‑erythro‑7,8‑dihydroneopterin triphosphate 2'‑epimerase and dihydroneopterin aldolase
*	NC_000913	3,206,435	0	C	T	39.1%	92.3 / 39.5	69	intergenic (‑179/‑28)	ttdR/ttdA	transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit
*	NC_000913	354,288	0	T	G	39.1%	109.8 / 12.5	64	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	689,514	0	A	C	39.0%	102.7 / 11.0	59	G456G (GGT→GGG)	lnt	apolipoprotein N‑acyltransferase
*	NC_000913	925,900	0	A	G	39.0%	105.6 / 11.0	59	noncoding (72/88 nt)	serW	tRNA‑Ser
*	NC_000913	298,960	0	A	C	38.5%	134.4 / 19.1	66	Y659D (TAT→GAT)	paoC	PaoABC aldehyde oxidoreductase, Moco‑containing subunit
*	NC_000913	357,873	0	C	T	38.3%	57.5 / 18.7	47	S273N (AGC→AAC)	cynR	transcriptional activator of cyn operon; autorepressor

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	93 (1.270)	9 (0.130)	9/280	9.8	8.4%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	= 4542986	109 (1.580)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)