BRESEQ :: Marginal Predictions

breseq version 0.33.1 revision 8505477f25b3
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
*	NC_000913	4,296,060	0	C	T	33.8%	56.0 / 51.2	73	intergenic (+266/+376)	gltP/yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Marginal new junction evidence (lowest skew 10 of 22 shown)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 225281	NA (NA)	10 (0.160)	8/274	7.0	NA	noncoding (1511/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
*	?	NC_000913	= 225293	NA (NA)	10 (0.160)	8/274	7.0	NA	noncoding (1523/1542 nt)	rrsH	16S ribosomal RNA of rrnH operon
*	?	NC_000913	= 899793	NA (NA)	3 (0.060) +35 bp	3/214	8.2	5.7%	noncoding (98/98 nt)	RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP82 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
*	?	NC_000913	1691484 =	66 (0.990)	3 (0.060) +35 bp	3/214	8.2	5.7%	noncoding (60/97 nt)	RIP126 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP126 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
*	?	NC_000913	274620 =	NA (NA)	5 (0.080)	5/266	8.4	NA	noncoding (530/1195 nt)	IS5	repeat region
*	?	NC_000913	274663 =	NA (NA)	5 (0.080)	5/266	8.4	NA	noncoding (487/1195 nt)	IS5	repeat region
*	?	NC_000913	= 3792764	85 (1.280)	4 (0.070)	4/262	8.9	4.8%	intergenic (‑213/+62)	kbl/yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
*	?	NC_000913	= 3792768	79 (1.290)	4 (0.070)	4/262	8.9	4.8%	intergenic (‑217/+58)	kbl/yibB	glycine C‑acetyltransferase/YibB family protein, function unknown
*	?	NC_000913	= 3944978	NA (NA)	6 (0.090)	4/272	9.2	24.8%	noncoding (1275/2904 nt)	rrlC	23S ribosomal RNA of rrnC operon
*	?	NC_000913	= 4038811	19 (0.290)	6 (0.090)	4/272	9.2	24.8%	noncoding (1293/2905 nt)	rrlA	23S ribosomal RNA of rrnA operon
*	?	NC_000913	2727891 =	NA (NA)	6 (0.090)	4/272	9.2	NA	noncoding (1294/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
*	?	NC_000913	2727910 =	NA (NA)	6 (0.090)	4/272	9.2	NA	noncoding (1275/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
*	?	NC_000913	= 227052	41 (0.620)	6 (0.090)	4/272	9.2	13.3%	noncoding (1294/2904 nt)	rrlH	23S ribosomal RNA of rrnH operon
*	?	NC_000913	2727910 =	NA (NA)	6 (0.090)	4/272	9.2	13.3%	noncoding (1275/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
*	?	NC_000913	1997426 =	59 (0.890)	4 (0.060)	4/276	9.3	6.3%	coding (389/753 nt)	yecC	putative ABC transporter ATPase
*	?	NC_000913	1997455 =	61 (0.950)	4 (0.060)	4/276	9.3	6.3%	coding (360/753 nt)	yecC	putative ABC transporter ATPase
*	?	NC_000913	2316838 =	NA (NA)	3 (0.050)	3/260	9.6	NA	noncoding (5/197 nt)	RIP162 (repetitive extragenic palindromic) element; contains 5 REP sequences and 1 IHF site	RIP162 (repetitive extragenic palindromic) element; contains 5 REP sequences and 1 IHF site
*	?	NC_000913	2316870 =	NA (NA)	3 (0.050)	3/260	9.6	NA	noncoding (37/197 nt)	RIP162 (repetitive extragenic palindromic) element; contains 5 REP sequences and 1 IHF site	RIP162 (repetitive extragenic palindromic) element; contains 5 REP sequences and 1 IHF site
*	?	NC_000913	= 4542690	60 (0.900)	3 (0.050)	3/266	9.7	4.0%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
*	?	NC_000913	= 4542986	86 (1.380)	3 (0.050)	3/266	9.7	4.0%	intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)