breseq  version 0.33.1  revision 8505477f25b3 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 24 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,993,916	0	A	C	60.0%	16.5 / 27.2	35	intergenic (+205/‑341)	kefB‑III/PP_mr64	glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
*	NC_002947	1,187,461	0	G	T	56.2%	9.4 / 18.7	16	P37P (CCG→CCT)	tadA	tRNA adenosine(34) deaminase TadA
*	NC_002947	5,514,902	0	T	G	55.6%	‑6.0 / 12.5	31	L35R (CTG→CGG)	urtB	urea ABC transporter permease
*	NC_002947	5,939,860	0	G	T	53.8%	2.7 / 12.3	13	intergenic (+10/‑125)	PP_mr61/fau	6S ncRNA/5‑formyltetrahydrofolate cyclo‑ligase
*	NC_002947	3,425,637	0	A	C	53.3%	5.0 / 16.1	15	intergenic (‑35/+74)	PP_3035/PP_5554	hypothetical protein/hypothetical protein
*	NC_002947	2,092,443	0	G	A	48.3%	3.0 / 33.3	29	intergenic (+264/+654)	PP_1865/aroH	transposase/3‑deoxy‑7‑phosphoheptulonate synthase
*	NC_002947	2,092,445	0	T	G	48.3%	‑3.6 / 45.7	29	intergenic (+266/+652)	PP_1865/aroH	transposase/3‑deoxy‑7‑phosphoheptulonate synthase
*	NC_002947	5,993,910	0	T	C	47.6%	‑0.5 / 26.4	21	intergenic (+199/‑347)	kefB‑III/PP_mr64	glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
*	NC_002947	195,634	0	C	T	46.7%	‑3.7 / 16.3	16	T380T (ACC→ACT)	PP_0168	putative surface adhesion protein
*	NC_002947	2,092,447	0	A	C	46.7%	‑4.5 / 47.3	30	intergenic (+268/+650)	PP_1865/aroH	transposase/3‑deoxy‑7‑phosphoheptulonate synthase
*	NC_002947	4,438,466	0	G	C	45.8%	24.8 / 13.7	24	intergenic (‑29/‑89)	PP_5648/PP_3928	hypothetical protein/hypothetical protein
*	NC_002947	3,452,283	0	T	G	45.2%	5.7 / 10.4	33	A19A (GCT→GCG)	PP_5556	bacteriophage lysis protein
*	NC_002947	3,796,450	0	T	G	44.1%	25.6 / 17.7	35	V301G (GTA→GGA)	PP_3353	sulfatase‑modifying protein
*	NC_002947	699,725	0	A	G	41.9%	13.0 / 35.3	31	intergenic (+115/‑129)	PP_t06/PP_23SD	tRNA‑Ala/23S ribosomal RNA
*	NC_002947	4,813,153	0	G	T	41.5%	45.4 / 42.4	41	intergenic (‑268/‑287)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
*	NC_002947	4,039,793	0	C	A	34.4%	41.6 / 12.5	32	intergenic (‑97/‑150)	PP_3556/PP_3557	membrane protein/methyl‑accepting chemotaxis transducer
*	NC_002947	4,353,698	0	A	G	31.8%	26.9 / 16.4	22	intergenic (‑70/+404)	PP_3820/galU	group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase
*	NC_002947	5,993,808	0	G	T	31.6%	27.9 / 13.4	19	intergenic (+97/‑449)	kefB‑III/PP_mr64	glutathione‑regulated potassium/H+ antiporter/C4 ncRNA
*	NC_002947	3,994,354	0	A	C	28.0%	76.8 / 16.4	50	T627P (ACC→CCC)	oplA	5‑oxoprolinase A
*	NC_002947	2,092,225	0	G	T	27.6%	96.8 / 31.1	59	intergenic (+46/+872)	PP_1865/aroH	transposase/3‑deoxy‑7‑phosphoheptulonate synthase

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	16219 =	10 (0.440)	3 (0.140)	3/258	1.3	18.3%	intergenic (+469/‑370)	gyrB/PP_5421	DNA gyrase subunit B/hypothetical protein
	?	NC_002947	= 16362	17 (0.770)					intergenic (+612/‑227)	gyrB/PP_5421	DNA gyrase subunit B/hypothetical protein