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 537 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	58.8%	3.3 / 45.1	34	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	4,209,827	0	T	G	56.7%	15.0 / 36.5	31	noncoding (54/76 nt)	gltV	tRNA‑Glu
*	NC_000913	786,855	0	A	C	47.9%	98.0 / 20.8	71	G247G (GGT→GGG)	gpmA	phosphoglyceromutase 1
*	NC_000913	2,483,268	0	T	A	47.6%	54.5 / 42.7	63	L24F (TTA→TTT)	emrK	multidrug resistance efflux pump membrane fusion protein
*	NC_000913	357,875	0	A	T	46.0%	42.5 / 19.5	37	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	357,880	0	T	C	44.4%	42.3 / 11.7	36	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	3,640,981	0	C	T	43.4%	51.5 / 36.3	54	F40F (TTC→TTT)	dtpB	dipeptide and tripeptide permease B
*	NC_000913	3,492,834	0	T	G	43.3%	98.0 / 17.3	68	G89G (GGT→GGG)	tsgA	putative transporter
*	NC_000913	357,873	0	C	T	43.2%	32.5 / 21.4	37	S273N (AGC→AAC)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	503,834	0	T	C	43.1%	74.6 / 23.5	59	D288G (GAT→GGT)	fsr	putative fosmidomycin efflux system protein
*	NC_000913	1,535,785	0	A	G	43.1%	97.4 / 20.0	65	F25S (TTC→TCC)	yddE	PhzC‑PhzF family protein
*	NC_000913	1,222,596	0	G	A	42.9%	50.1 / 36.2	56	F13F (TTC→TTT)	ymgD	uncharacterized protein
*	NC_000913	3,578,290	0	A	C	42.6%	114.9 / 14.3	68	V146G (GTG→GGG)	gntR	d‑gluconate inducible gluconate regulon transcriptional repressor
*	NC_000913	2,678,039	0	T	G	42.6%	100.5 / 15.3	61	N108T (AAC→ACC)	yphE	putative sugar ABC transporter ATPase
*	NC_000913	3,578,301	0	A	C	41.8%	98.4 / 20.8	67	G142G (GGT→GGG)	gntR	d‑gluconate inducible gluconate regulon transcriptional repressor
*	NC_000913	2,483,264	0	T	A	41.3%	77.4 / 27.8	63	I26F (ATT→TTT)	emrK	multidrug resistance efflux pump membrane fusion protein
*	NC_000913	1,245,234	0	G	T	41.0%	134.7 / 47.9	95	L25F (TTG→TTT)	ycgY	uncharacterized protein
*	NC_000913	4,622,250	0	A	G	40.6%	88.5 / 23.8	64	E161G (GAG→GGG)	yjjJ	putative protein kinase
*	NC_000913	907,218	0	G	A	40.4%	56.6 / 26.7	52	F355F (TTC→TTT)	ybjT	putative NAD‑dependent oxidoreductase
*	NC_000913	1,489,174	0	G	T	39.7%	96.4 / 24.6	65	G315C (GGT→TGT)	aldA	aldehyde dehydrogenase A, NAD‑linked

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	= 1207805	66 (0.830)	14 (0.200)	14/266	7.8	21.7%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	42 (0.590)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	1207790 =	67 (0.840)	10 (0.140)	10/266	9.6	16.3%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	43 (0.610)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	= 4542690	93 (1.170)	4 (0.050)	4/280	14.0	4.1%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	= 4542986	101 (1.350)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)