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 42 shown, sorted by frequency from high to low)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	ACB143	4,841,912	0	C	G	53.3%	11.2 / 20.2	16	intergenic (+1/‑105)	CJ019_04539/hemN	hypothetical protein/Oxygen‑independent coproporphyrinogen IIIoxidase
*	ACB143	690,164	0	T	G	52.9%	0.3 / 12.1	19	intergenic (+41/‑2418)	bauC/PP_RS08750	Putative 3‑oxopropanoate dehydrogenase/tRNA‑Val
*	ACB143	1,433,087	0	A	C	52.9%	0.6 / 10.4	17	intergenic (‑364/‑295)	yveA/CJ019_01212	Aspartate‑proton symporter/IS110 family transposase ISPpu9
*	ACB143	3,440,371	0	T	G	50.0%	33.2 / 10.7	40	Y33D (TAT→GAT)	CJ019_03266	hypothetical protein
*	ACB143	2,094,808	0	A	C	44.0%	11.6 / 16.8	50	L186R (CTG→CGG)	CJ019_01995	hypothetical protein
*	ACB143	1,175,552	0	A	C	41.5%	30.1 / 12.5	41	N49T (AAC→ACC)	tadA	tRNA‑specific adenosine deaminase
*	ACB143	3,626,089	0	T	G	40.0%	38.7 / 10.1	50	V174G (GTG→GGG)	hcf136_3	Ycf48‑like protein
*	ACB143	4,425,070	0	G	C	39.5%	41.7 / 34.1	43	intergenic (‑29/‑89)	CJ019_04200/CJ019_04201	hypothetical protein/hypothetical protein
*	ACB143	6,003,100	0	A	C	38.1%	89.2 / 17.8	63	T257P (ACC→CCC)	CJ019_05617	putative protein
*	ACB143	3,210,864	0	T	G	35.7%	135.2 / 13.9	85	V204G (GTC→GGC)	oprJ_2	Outer membrane protein OprJ
*	ACB143	6,003,110	0	A	C	35.5%	84.1 / 15.7	62	H260P (CAC→CCC)	CJ019_05617	putative protein
*	ACB143	352,727	0	A	C	35.4%	49.2 / 11.7	48	intergenic (+37/+83)	cdhR_1/CJ019_00326	HTH‑type transcriptional regulator CdhR/hypothetical protein
*	ACB143	5,693,175	0	A	C	34.2%	58.0 / 12.2	74	S236R (AGC→CGC)	pyrC'	Dihydroorotase‑like protein
*	ACB143	3,134,550	0	T	G	33.3%	49.0 / 10.6	54	L143V (TTG→GTG)	CJ019_02952	hypothetical protein
*	ACB143	5,058,084	0	C	G	33.3%	74.9 / 13.5	46	D78H (GAC→CAC)	proP_7	Proline/betaine transporter
*	ACB143	2,171,271	0	G	C	32.7%	202.9 / 41.4	129	V150V (GTG→GTC)	CJ019_02060	IS1182 family transposase ISPpu16
*	ACB143	5,768,328	0	T	G	31.9%	83.7 / 13.5	71	E610A (GAG→GCG)	caiT	L‑carnitine/gamma‑butyrobetaine antiporter
*	ACB143	5,387,620	0	C	G	31.6%	49.9 / 19.0	38	intergenic (‑1629/+22)	CJ019_05070/nptII	hypothetical protein/neomycin phosphotransferase
*	ACB143	916,696	0	T	G	31.4%	95.9 / 11.5	70	Q516P (CAG→CCG)	ltxB	Leukotoxin export ATP‑binding protein LtxB
*	ACB143	5,530,421	0	A	C	31.3%	97.1 / 10.7	67	intergenic (‑53/+102)	livH_5/braC_2	High‑affinity branched‑chain amino acidtransport system permease protein LivH/Leucine‑, isoleucine‑, valine‑, threonine‑, and alanine‑binding protein

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	ACB143	= 2407937	43 (0.540)	3 (0.060)	3/172	6.2	8.4%	coding (95/198 nt)	CJ019_02271	hypothetical protein
	?	ACB143	= 4901239	37 (0.710)					coding (102/198 nt)	CJ019_04595	hypothetical protein
*	?	ACB143	= 4759431	85 (1.080)	4 (0.050)	4/258	7.9	5.1%	intergenic (+46/‑94)	fpvA_3/ligM_KToptimized	Ferripyoverdine receptor/sequence generated by OPTIMIZER for KT2440
	?	ACB143	4760973 =	64 (0.820)					intergenic (+33/+22)	ligM_KToptimized/lip2	sequence generated by OPTIMIZER for KT2440/Lipase 2
*	?	ACB143	1094534 =	78 (0.990)	3 (0.040)	3/240	8.2	3.9%	coding (63/486 nt)	mlaD	Intermembrane phospholipid transport systembinding protein MlaD
	?	ACB143	= 1094530	75 (1.030)					coding (59/486 nt)	mlaD	Intermembrane phospholipid transport systembinding protein MlaD
*	?	ACB143	= 3457291	67 (0.850)	3 (0.040)	3/248	8.4	6.3%	coding (2/1824 nt)	CJ019_03279	hypothetical protein
	?	ACB143	3457384 =	25 (0.330)					intergenic (‑92/+27)	CJ019_03279/ppiC_2	hypothetical protein/Peptidyl‑prolyl cis‑trans isomerase C