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

Marginal read alignment evidence (highest frequency 20 of 21 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	ACB143	4,519,965	0	A	T	50.0%	‑0.5 / 26.1	28	intergenic (+43/‑39)	purB/roxA	Adenylosuccinate lyase/50S ribosomal protein L16 3‑hydroxylase
*	ACB143	5,693,175	0	A	C	44.4%	8.0 / 12.4	47	S236R (AGC→CGC)	pyrC'	Dihydroorotase‑like protein
*	ACB143	4,519,968	0	C	T	42.1%	4.3 / 17.0	28	intergenic (+46/‑36)	purB/roxA	Adenylosuccinate lyase/50S ribosomal protein L16 3‑hydroxylase
*	ACB143	2,730,149	0	T	G	41.5%	45.7 / 12.5	53	V1336G (GTG→GGG)	CJ019_02576	hypothetical protein
*	ACB143	3,784,767	0	T	G	41.3%	49.0 / 11.0	47	S531R (AGC→CGC)	dmdC_4	3‑methylmercaptopropionyl‑CoA dehydrogenase
*	ACB143	4,277,026	0	T	G	41.3%	43.5 / 18.8	46	G278G (GGT→GGG)	hbd	3‑hydroxybutyryl‑CoA dehydrogenase
*	ACB143	2,125,697	0	G	C	36.8%	53.6 / 10.6	39	F115L (TTC→TTG)	yadV	putative fimbrial chaperone YadV
*	ACB143	4,277,062	0	G	C	35.3%	80.8 / 15.0	51	P3P (CCG→CCC)	fabR_1	HTH‑type transcriptional repressor FabR
*	ACB143	3,653,733	0	T	G	33.3%	49.9 / 14.9	36	V14V (GTA→GTC)	mtnB_2	Methylthioribulose‑1‑phosphate dehydratase
*	ACB143	5,620,146	0	G	C	32.5%	37.2 / 12.6	42	G269G (GGC→GGG)	CJ019_05281	hypothetical protein
*	ACB143	3,653,746	0	C	G	30.6%	64.4 / 10.6	36	S10T (AGC→ACC)	mtnB_2	Methylthioribulose‑1‑phosphate dehydratase
*	ACB143	2,308,304	0	C	G	30.0%	54.0 / 11.1	40	A230P (GCC→CCC)	fucA	L‑fuculose phosphate aldolase
*	ACB143	4,277,029	0	C	G	30.0%	61.6 / 10.1	45	F279L (TTC→TTG)	hbd	3‑hydroxybutyryl‑CoA dehydrogenase
*	ACB143	2,641,826	0	A	C	29.7%	121.3 / 11.6	74	Q36P (CAG→CCG)	CJ019_02499	hypothetical protein
*	ACB143	5,620,158	0	G	C	29.3%	39.5 / 13.8	42	C265W (TGC→TGG)	CJ019_05281	hypothetical protein
*	ACB143	2,730,121	0	C	A	27.6%	91.3 / 14.4	58	Q1327K (CAA→AAA)	CJ019_02576	hypothetical protein
*	ACB143	4,028,451	0	T	A	26.7%	71.1 / 10.6	45	intergenic (‑120/‑127)	CJ019_03802/mcpU_3	hypothetical protein/Methyl‑accepting chemotaxis protein McpU
*	ACB143	5,206,107	0	C	A	25.3%	165.8 / 12.8	83	A308A (GCG→GCT)	metC	Cystathionine beta‑lyase
*	ACB143	3,653,778	0	A	G	23.1%	78.8 / 10.0	41	intergenic (‑4/+12)	mtnB_2/CJ019_03463	Methylthioribulose‑1‑phosphate dehydratase/Hydroxypyruvate reductase
*	ACB143	1,393,946	0	A	T	21.1%	134.6 / 13.6	71	intergenic (+56/‑113)	cpoB/queE	Cell division coordinator CpoB/7‑carboxy‑7‑deazaguanine synthase

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	ACB143	= 5985951	32 (0.520)	4 (0.070)	4/244	6.1	10.0%	intergenic (+51/‑638)	kefC_3/CJ019_05604	Glutathione‑regulated potassium‑efflux systemprotein KefC/hypothetical protein
	?	ACB143	5986173 =	42 (0.730)					intergenic (+273/‑416)	kefC_3/CJ019_05604	Glutathione‑regulated potassium‑efflux systemprotein KefC/hypothetical protein
*	?	ACB143	= 4364247	34 (0.560)	3 (0.050)	3/254	7.0	6.2%	intergenic (+327/‑337)	CJ019_04110/CJ019_04111	hypothetical protein/hypothetical protein
	?	ACB143	4419014 =	57 (0.950)					intergenic (+1/+329)	CJ019_04192/sohB	hypothetical protein/putative protease SohB