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 803 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	56.0%	14.2 / 72.6	50	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,921,177	0	A	C	53.7%	80.0 / 108.4	67	G308G (GGT→GGG)	gudP	putative D‑glucarate transporter
*	NC_000913	2,984,441	0	A	C	52.1%	86.8 / 129.0	71	G384G (GGT→GGG)	yqeF	short chain acyltransferase
*	NC_000913	357,880	0	T	C	51.1%	38.0 / 70.4	47	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,921,173	0	T	C	50.7%	62.2 / 104.4	69	I310V (ATT→GTT)	gudP	putative D‑glucarate transporter
*	NC_000913	357,875	0	A	T	50.0%	46.7 / 29.3	48	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	599,576	0	T	G	50.0%	78.0 / 30.0	64	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	1,376,505	0	A	C	49.2%	91.0 / 24.0	67	T158P (ACC→CCC)	ycjR	putative TIM alpha/beta barrel enzyme
*	NC_000913	1,157,271	0	T	G	48.5%	94.1 / 16.3	68	G165G (GGT→GGG)	ycfH	putative DNase
*	NC_000913	1,825,061	0	G	A	48.3%	60.2 / 39.7	60	intergenic (‑124/+79)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced
*	NC_000913	2,252,660	0	G	T	47.5%	84.4 / 37.9	61	E321* (GAA→TAA)	yeiI	putative kinase
*	NC_000913	1,413,735	0	A	T	46.6%	60.7 / 40.9	58	Y2* (TAT→TAA)	ydaC	DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein
*	NC_000913	3,177,748	0	C	A	46.2%	78.7 / 65.4	91	E55* (GAG→TAG)	nudF	ADP‑ribose pyrophosphatase
*	NC_000913	4,346,675	0	T	G	46.0%	143.9 / 24.8	88	T218P (ACC→CCC)	fumB	anaerobic class I fumarate hydratase (fumarase B)
*	NC_000913	213,341	0	A	G	44.6%	111.0 / 33.2	85	G337G (GGA→GGG)	tilS	tRNA(Ile)‑lysidine synthetase
*	NC_000913	2,984,447	0	G	C	44.4%	115.8 / 25.8	72	G382G (GGC→GGG)	yqeF	short chain acyltransferase
*	NC_000913	2,921,166	0	G	A	44.1%	73.3 / 33.7	68	S312F (TCC→TTC)	gudP	putative D‑glucarate transporter
*	NC_000913	3,443,277	0	A	C	44.1%	112.5 / 22.2	68	V274G (GTA→GGA)	secY	preprotein translocase membrane subunit
*	NC_000913	3,971,097	0	T	G	44.0%	177.4 / 22.4	109	V322G (GTG→GGG)	wecB	UDP‑N‑acetyl glucosamine‑2‑epimerase
*	NC_000913	1,825,056	0	G	A	43.9%	69.2 / 33.4	57	intergenic (‑119/+84)	ves/spy	cold‑ and stress‑inducible protein/periplasmic ATP‑independent protein refolding chaperone, stress‑induced

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	65 (0.760)	20 (0.260)	20/266	4.3	29.0%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	= 1209602	40 (0.520)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
*	?	NC_000913	1207790 =	74 (0.860)	16 (0.210)	15/266	5.6	23.2%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913	1209619 =	40 (0.520)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related