breseq  version 0.27.1  revision 87c22d663cc3 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 551 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	298,960	0	A	C	48.9%	103.8 / 36.4	89	Y659D (TAT→GAT)	paoC	PaoABC aldehyde oxidoreductase, Moco‑containing subunit
*	NC_000913	29,486	0	C	A	47.7%	133.3 / 68.5	109	intergenic (+291/‑165)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	29,496	0	T	A	46.2%	103.6 / 67.7	106	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	213,341	0	A	G	46.1%	101.9 / 29.0	76	G337G (GGA→GGG)	tilS	tRNA(Ile)‑lysidine synthetase
*	NC_000913	2,434,882	0	T	G	45.5%	124.6 / 24.9	88	Y252S (TAC→TCC)	truA	tRNA pseudouridine(38‑40) synthase
*	NC_000913	4,538,109	0	A	C	45.2%	136.1 / 29.9	84	G219G (GGT→GGG)	nanM	N‑acetylneuraminic acid mutarotase
*	NC_000913	1,622,816	0	G	A	44.1%	81.9 / 115.5	111	intergenic (+75/+144)	yneM/dgcZ	inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing
*	NC_000913	2,603,342	0	A	C	43.8%	90.1 / 64.9	73	T509P (ACC→CCC)	hyfB	hydrogenase 4, membrane subunit
*	NC_000913	2,421,443	0	A	C	43.5%	152.7 / 29.8	93	Y40S (TAC→TCC)	folX	D‑erythro‑7,8‑dihydroneopterin triphosphate 2'‑epimerase and dihydroneopterin aldolase
*	NC_000913	3,850,007	0	G	A	43.4%	88.9 / 42.8	76	P44S (CCG→TCG)	uhpB	sensory histidine kinase in two‑component regulatory sytem with UhpA
*	NC_000913	646,747	0	T	G	43.2%	136.9 / 12.1	81	T255P (ACC→CCC)	citG	2‑(5''‑triphosphoribosyl)‑3'‑dephosphocoenzyme‑A synthase
*	NC_000913	1,842,914	0	A	G	42.7%	102.1 / 30.7	77	M182V (ATG→GTG)	gdhA	glutamate dehydrogenase, NADP‑specific
*	NC_000913	1,435,727	0	G	A	42.6%	147.9 / 78.9	116	intergenic (‑108/+33)	uspF/ompN	stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific
*	NC_000913	869,126	0	T	G	42.2%	107.1 / 24.7	66	V536G (GTG→GGG)	gsiA	glutathione ABC transporter ATPase
*	NC_000913	501,575	0	A	C	42.2%	161.0 / 15.5	85	V555G (GTG→GGG)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	925,900	0	A	G	41.8%	190.9 / 23.9	104	noncoding (72/88 nt)	serW	tRNA‑Ser
*	NC_000913	15,410	0	T	G	41.7%	112.5 / 10.5	60	intergenic (+112/‑35)	dnaJ/insL1	chaperone Hsp40, DnaK co‑chaperone/IS186 transposase
*	NC_000913	3,133,302	0	T	G	41.7%	182.8 / 18.8	97	H219P (CAC→CCC)	yghS	putative ATP‑binding protein
*	NC_000913	4,378,802	0	A	C	41.3%	192.0 / 14.2	92	V48G (GTA→GGA)	ampC	penicillin‑binding protein; beta‑lactamase, intrinsically weak
*	NC_000913	1,649,295	0	T	G	41.2%	145.3 / 21.9	80	intergenic (+254/‑314)	ydfC/dicB	uncharacterized protein, Qin prophage/Qin prophage; cell division inhibition protein

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	925901 =	100 (1.070)	26 (0.280) +C	21/298	7.2	22.1%	noncoding (71/88 nt)	serW	tRNA‑Ser
	?	NC_000913	= 1097399	84 (0.900)					intergenic (+570/+166)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
*	?	NC_000913	925901 =	100 (1.070)	11 (0.120) +C	6/298	14.0	13.7%	noncoding (71/88 nt)	serW	tRNA‑Ser
	?	NC_000913	= 1097218	39 (0.420)					intergenic (+389/+347)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
*	?	NC_000913	= 4514684	97 (1.040)	4 (0.040)	4/296	15.4	4.1%	coding (1994/2325 nt)	fecA	TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein
	?	NC_000913	= 4514725	90 (0.970)					coding (1953/2325 nt)	fecA	TonB‑dependent outer membrane ferric citrate transporter and signal transducer; ferric citrate extracelluar receptor; FecR‑interacting protein