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 1042 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	380,012	1	.	G	73.6%	140.1 / 51.9	53	intergenic (‑131/+57)	frmR/yaiO	regulator protein that represses frmRAB operon/outer membrane protein
*	NC_000913	380,012	2	.	G	67.9%	121.4 / 65.0	53	intergenic (‑131/+57)	frmR/yaiO	regulator protein that represses frmRAB operon/outer membrane protein
*	NC_000913	3,270,481	1	.	C	67.5%	210.8 / 81.0	83	intergenic (+879/+144)	yhaC/garK	pentapetide repeats‑related protein/glycerate kinase I
*	NC_000913	1,097,480	0	A	G	65.4%	24.9 / 18.4	26	intergenic (+651/+85)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
*	NC_000913	2,578,143	0	A	C	50.6%	86.5 / 164.4	87	L79V (TTA→GTA)	maeB	malic enzyme: putative oxidoreductase/phosphotransacetylase
*	NC_000913	1,376,505	0	A	C	50.0%	150.0 / 27.4	94	T158P (ACC→CCC)	ycjR	putative TIM alpha/beta barrel enzyme
*	NC_000913	29,496	0	T	A	46.9%	113.7 / 73.0	98	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	4,457,105	0	A	G	46.0%	148.7 / 44.5	113	I441V (ATC→GTC)	mpl	UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase
*	NC_000913	599,576	0	T	G	45.5%	143.6 / 34.3	88	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	3,492,834	0	T	G	44.8%	149.5 / 24.3	87	G89G (GGT→GGG)	tsgA	putative transporter
*	NC_000913	1,159,837	0	A	G	44.1%	83.1 / 25.8	68	I572T (ATC→ACC)	fhuE	ferric‑rhodotorulic acid outer membrane transporter
*	NC_000913	1,825,056	0	G	A	43.0%	105.1 / 54.1	86	intergenic (‑119/+84)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
*	NC_000913	213,341	0	A	G	43.0%	160.6 / 25.3	101	G337G (GGA→GGG)	tilS	tRNA(Ile)‑lysidine synthetase
*	NC_000913	4,332,791	0	A	C	42.9%	158.8 / 26.7	84	V161G (GTG→GGG)	basS	sensory histidine kinase in two‑component regulatory system with BasR
*	NC_000913	2,434,882	0	T	G	42.3%	192.6 / 35.5	105	Y252S (TAC→TCC)	truA	tRNA pseudouridine(38‑40) synthase
*	NC_000913	1,755,871	0	T	A	42.1%	109.1 / 52.3	76	G58G (GGT→GGA)	pykF	pyruvate kinase I
*	NC_000913	4,171,892	0	C	G	42.1%	45.8 / 19.3	38	intergenic (+136/‑165)	rrfB/murB	5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding
*	NC_000913	357,890	0	C	A	42.0%	74.5 / 27.2	50	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	4,538,109	0	A	C	41.8%	214.3 / 42.1	123	G219G (GGT→GGG)	nanM	N‑acetylneuraminic acid mutarotase
*	NC_000913	1,825,061	0	G	A	41.8%	124.1 / 50.0	91	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced

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	= 380012	18 (0.180)	50 (0.470) +GGG	38/272	4.4	73.2%	intergenic (‑131/+57)	frmR/yaiO	regulator protein that represses frmRAB operon/outer membrane protein
	?	NC_000913	380013 =	18 (0.170)					intergenic (‑132/+56)	frmR/yaiO	regulator protein that represses frmRAB operon/outer membrane protein
*	?	NC_000913	1722616 =	103 (0.950)	3 (0.030)	3/276	19.8	3.1%	coding (496/2013 nt)	ydhK	putative efflux protein (PET) component of YdhJK efflux pump
	?	NC_000913	= 1722612	95 (0.940)					coding (492/2013 nt)	ydhK	putative efflux protein (PET) component of YdhJK efflux pump