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 299 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	52.5%	27.5 / 65.3	40	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	1,097,581	0	A	G	47.5%	75.2 / 28.0	61	noncoding (72/88 nt)	serX	tRNA‑Ser
*	NC_000913	354,288	0	T	G	44.4%	115.8 / 11.8	63	V528G (GTG→GGG)	prpE	propionate‑‑CoA ligase
*	NC_000913	357,880	0	T	C	42.9%	53.7 / 12.0	42	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	3,556,207	0	T	C	41.2%	71.5 / 13.9	53	S215G (AGT→GGT)	rtcA	RNA 3'‑terminal phosphate cyclase
*	NC_000913	4,536,197	0	A	T	41.2%	64.1 / 36.7	51	intergenic (+166/+417)	yjhR/nanS	pseudogene, helicase family; putative frameshift suppressor/9‑O‑acetyl N‑acetylneuraminic acid esterase
*	NC_000913	3,423,297	0	G	C	40.3%	98.2 / 27.8	63	intergenic (+103/+126)	yhdZ/rrfF	putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon
*	NC_000913	29,496	0	T	A	40.0%	98.4 / 28.0	65	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	941,713	0	T	G	40.0%	118.1 / 21.9	65	V252G (GTG→GGG)	dmsA	dimethyl sulfoxide reductase, anaerobic, subunit A
*	NC_000913	3,556,200	0	G	A	40.0%	60.8 / 18.4	51	S217F (TCC→TTC)	rtcA	RNA 3'‑terminal phosphate cyclase
*	NC_000913	5,159	0	G	A	39.7%	91.9 / 36.8	73	intergenic (+139/‑75)	thrC/yaaX	L‑threonine synthase/DUF2502 family putative periplasmic protein
*	NC_000913	3,984,090	0	T	C	39.6%	76.9 / 16.5	53	F378S (TTC→TCC)	aslB	putative AslA‑specific sulfatase‑maturating enzyme
*	NC_000913	3,042,604	0	A	C	39.4%	136.6 / 16.8	71	V182G (GTG→GGG)	yqfA	hemolysin III family HylIII inner membrane protein
*	NC_000913	1,153,573	0	T	G	39.3%	100.7 / 31.9	61	Y92D (TAC→GAC)	pabC	4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
*	NC_000913	4,604,344	0	C	T	39.2%	70.4 / 19.7	51	S62F (TCT→TTT)	bglJ	bgl operon transcriptional activator
*	NC_000913	1,159,837	0	A	G	39.1%	64.6 / 12.0	47	I572T (ATC→ACC)	fhuE	ferric‑rhodotorulic acid outer membrane transporter
*	NC_000913	1,576,077	0	C	A	38.8%	114.6 / 30.0	67	D515Y (GAT→TAT)	yddB	putative TonB‑dependent outer membrane receptor
*	NC_000913	3,350,844	0	A	C	38.8%	120.4 / 16.3	67	L728V (TTA→GTA)	arcB	aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB
*	NC_000913	3,423,290	0	A	C	38.5%	70.7 / 18.1	65	intergenic (+96/+133)	yhdZ/rrfF	putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon
*	NC_000913	4,571,384	0	T	A	38.5%	88.2 / 13.2	52	Y64F (TAT→TTT)	yjiR	putative DNA‑binding transcriptional regulator/putative aminotransferase

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 =	86 (1.220)	7 (0.110)	7/280	10.4	8.9%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	63 (0.950)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
*	?	NC_000913	= 4542690	89 (1.260)	6 (0.090)	6/280	11.0	7.6%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	= 4542986	62 (0.930)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)