breseq  version 0.35.4  revision f352f80f4bc9 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	1,123,238	0	C	A	64.3%	‑6.3 / 10.0	29	intergenic (‑240/+64)	gcvH_1/CJ019_01062	Glycine cleavage system H protein/hypothetical protein
*	KT2440	4,143,814	0	A	C	57.9%	3.4 / 14.1	19	intergenic (+168/‑229)	lrp_3/CJ019_03903	Leucine‑responsive regulatory protein/hypothetical protein
*	KT2440	3,440,348	0	T	G	46.2%	‑6.6 / 10.5	27	A19A (GCT→GCG)	CJ019_03266	hypothetical protein
*	KT2440	2,094,817	0	T	G	41.5%	16.3 / 10.1	42	Q183P (CAG→CCG)	CJ019_01995	hypothetical protein
*	KT2440	4,245,145	0	A	C	38.0%	35.2 / 12.1	53	L178R (CTG→CGG)	CJ019_03982	Crotonyl‑CoA hydratase
*	KT2440	4,866,886	0	T	G	30.2%	56.4 / 14.1	43	N188T (AAC→ACC)	aqpZ	Aquaporin Z
*	KT2440	1,348,440	0	C	G	29.5%	76.1 / 11.2	44	intergenic (‑11/+129)	CJ019_01261/CJ019_01262	hypothetical protein/hypothetical protein
*	KT2440	4,669,130	0	G	T	28.8%	60.6 / 11.4	52	L161L (CTC→CTA)	chrR	Quinone reductase
*	KT2440	6,039,837	0	C	A	28.4%	72.6 / 23.3	67	A37S (GCC→TCC)	puuD_3	Gamma‑glutamyl‑gamma‑aminobutyrate hydrolasePuuD
*	KT2440	763,257	0	T	G	25.9%	97.0 / 13.0	58	F267C (TTT→TGT)	gcvA_4	Glycine cleavage system transcriptionalactivator
*	KT2440	1,348,427	0	C	G	23.9%	96.3 / 10.2	46	M1I (ATG→ATC) †	CJ019_01261	hypothetical protein
*	KT2440	1,288,059	0	C	A	22.0%	106.9 / 10.7	50	intergenic (+22/+48)	slyB/nhaA_1	Outer membrane lipoprotein SlyB/Na( )/H( ) antiporter NhaA

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	KT2440	= 5541338	81 (1.430)	3 (0.050)	3/254	6.4	3.8%	coding (1542/2574 nt)	rnr	Ribonuclease R
	?	KT2440	5541343 =	73 (1.320)					coding (1537/2574 nt)	rnr	Ribonuclease R