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 453 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	599,576	0	T	G	53.1%	34.4 / 79.2	49	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	884,346	0	C	G	52.6%	41.6 / 71.4	38	A225G (GCG→GGG)	mdfA	multidrug efflux system protein
*	NC_000913	1,825,061	0	G	A	49.0%	47.2 / 32.5	49	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
*	NC_000913	436,516	0	C	A	48.4%	69.0 / 42.8	62	Q295K (CAA→AAA)	thiL	thiamine monophosphate kinase
*	NC_000913	907,602	0	A	C	47.8%	50.5 / 16.0	47	G227G (GGT→GGG)	ybjT	putative NAD‑dependent oxidoreductase
*	NC_000913	2,578,143	0	A	C	46.7%	82.4 / 19.1	60	L79V (TTA→GTA)	maeB	malic enzyme: putative oxidoreductase/phosphotransacetylase
*	NC_000913	3,133,302	0	T	G	46.7%	127.1 / 16.1	76	H219P (CAC→CCC)	yghS	putative ATP‑binding protein
*	NC_000913	354,288	0	T	G	46.6%	97.0 / 13.4	58	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	1,163,371	0	C	T	46.5%	43.5 / 29.2	43	L38F (CTC→TTC)	thiK	thiamine kinase
*	NC_000913	1,435,727	0	G	A	45.6%	46.7 / 35.7	46	intergenic (‑108/+33)	uspF/ompN	stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific
*	NC_000913	4,630,340	0	A	C	45.2%	104.9 / 18.5	76	G61G (GGT→GGG)	ettA	energy‑dependent translational throttle A
*	NC_000913	2,248,437	0	A	C	44.4%	87.5 / 10.5	54	G32G (GGT→GGG)	lysP	lysine transporter
*	NC_000913	4,101,507	0	T	G	44.4%	119.3 / 11.8	72	intergenic (+77/‑183)	sodA/kdgT	superoxide dismutase, Mn/2‑keto‑3‑deoxy‑D‑gluconate transporter
*	NC_000913	1,163,377	0	G	T	43.9%	65.3 / 24.6	43	E40* (GAA→TAA)	thiK	thiamine kinase
*	NC_000913	2,603,342	0	A	C	43.5%	51.9 / 30.4	46	T509P (ACC→CCC)	hyfB	hydrogenase 4, membrane subunit
*	NC_000913	1,435,718	0	G	A	43.2%	58.3 / 22.2	44	intergenic (‑99/+42)	uspF/ompN	stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific
*	NC_000913	1,825,056	0	G	A	43.2%	53.3 / 25.8	44	intergenic (‑119/+84)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
*	NC_000913	646,747	0	T	G	43.1%	107.3 / 12.0	58	T255P (ACC→CCC)	citG	2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase
*	NC_000913	1,080,837	0	G	T	42.9%	62.1 / 26.1	49	intergenic (+24/‑519)	putP/efeU	proline:sodium symporter/ferrous iron permease (pseudogene)
*	NC_000913	357,890	0	C	A	41.7%	48.7 / 15.5	36	L267F (TTG→TTT)	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	= 1961832	49 (0.740)	26 (0.390)	5/298	9.8	34.7%	intergenic (+37/‑140)	argS/yecT	arginyl‑tRNA synthetase/uncharacterized protein
	?	NC_000913	2101749 =	NA (NA)					noncoding (1195/1195 nt)	IS5	repeat region
*	?	NC_000913	1961829 =	51 (0.770)	6 (0.090)	4/298	10.4	10.5%	intergenic (+34/‑143)	argS/yecT	arginyl‑tRNA synthetase/uncharacterized protein
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region