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	4,245,145	0	A	C	54.2%	‑3.9 / 12.6	27	L178R (CTG→CGG)	CJ019_03982	Crotonyl‑CoA hydratase
*	KT2440	6,038,854	0	A	C	53.8%	5.4 / 12.1	13	F69V (TTC→GTC)	CJ019_05655	hypothetical protein
*	KT2440	2,770,075	0	T	G	53.6%	12.2 / 28.0	31	S163R (AGC→CGC)	CJ019_02613	hypothetical protein
*	KT2440	3,440,377	0	A	C	53.3%	4.0 / 10.7	15	Q29P (CAG→CCG)	CJ019_03266	hypothetical protein
*	KT2440	1,666,173	0	A	C	52.9%	5.8 / 13.7	19	D54A (GAC→GCC)	xerD	Tyrosine recombinase XerD
*	KT2440	5,334,688	0	T	G	50.0%	9.5 / 13.6	26	intergenic (+231/‑32)	folK/panB	2‑amino‑4‑hydroxy‑6‑hydroxymethyldihydropteridine pyrophosphokinase/3‑methyl‑2‑oxobutanoatehydroxymethyltransferase
*	KT2440	4,261,351	0	A	G	45.5%	11.1 / 11.4	25	F51S (TTC→TCC)	nicP_10	Porin‑like protein NicP
*	KT2440	4,291,840	0	T	G	42.4%	15.6 / 10.7	33	intergenic (‑142/‑20)	sdhL/CJ019_04025	Shikimate dehydrogenase‑like protein/hypothetical protein

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	KT2440	= 5538907	10 (0.310)	12 (0.370)	3/248	3.6	54.9%	intergenic (‑221/+39)	rpsF/CJ019_03622	30S ribosomal protein S6/IS110 family transposase ISPpu9
	?	KT2440	5539147 =	NA (NA)					intergenic (‑13/+416)	CJ019_03622/rlmB	IS110 family transposase ISPpu9/23S rRNA (guanosine‑2'‑O‑)‑methyltransferaseRlmB