Table 1.

Core promoters searched in the neural network and polyadenylation signals predicted by POLYADQ

Gene	Promoter locationa	Promoter score	TATA sequence	TATA location	Poly(A) sequence	Poly(A) location	Poly(A) score
RLORF1	NPb	NP	NP	NP	NP	NP	NP
ORF1	5,564-5,613	0.93	ATATAAAGCGGTAGT	5,575-5,589	NP	NP	NP
ICP4	10,928-10,977rc	0.88	TTTGTAAAAT	10,960-10,969r	AATAAA	5,867-5,872r	0.317475
S1	13,570-13,619r	0.85	CTATCTAAGGCGACC	13,602-13,611r	NP	NP	NP
S2	14,725-14,774	1.00	NP	NP	NP	NP	NP
US1	15,606-15,655	0.99	GCCTAAAAAGCACCG	15,613-15,628	AATAAA	17,015-17,020	0.644949
US10	17,003-17,052r	0.94	CAATAAACACCGCTT	17,014-17,028	NP	NP	NP
SORF3	19,280-19,329r	0.99	GCTTTAAAAG	19,313-19,322r	AATAAAr	18,248-18,253r	0.138679
US2	20,407-20,456r	0.85	GTCTAAAAGGCAGAG	20,434-20,448r	NP	NP	NP
MDV091.5-like	NP	NP	NP	NP	NP	NP	NP
US3	20,299-20,348	0.85	CCCATAAATG	20,305-20,314	NP	NP	NP
US4	21,799-21,848	0.96	GTATAAATTAGACAA	21,807-21,821	AATAAA	23,310-23,315	0.385382
US5	23,335-23,384	0.88	GTCTTGTGTTTATAT	23,335-23,349	AATAAA	25,170-25,175	0.266987
US6	25,058-25,107	0.94	CGGCAATATGTATAT	25,062-25,076	NP	NP	NP
US7	26,158-26,207	0.92	ATATAATTACTACGC	26,167-26,181	NP	NP	NP
US8	NP	NP	NP	NP	NP	NP	NP
ORFx	29,414-29,463	0.93	GTATATTAGGCCGAC	29,421-29,435	NP	NP	NP
US1	31,386-31,435r	0.99	GCCTAAAAAGCACCG	31,413-31,427r	AATAAA	30,021-30,026	0.644949
S2	32,267-32,316r	1.00	NP	NP	NP	NP	NP
S1	33,422-33,471	0.85	CTATCTAAGGCGACC	33,431-33,445	NP	NP	NP
ICP4	36,064-36,113	0.88	TTTGTAAAAT	36,072-36,081	AATAAA	41,170-41,175	0.317475

^a the position is according to the sequence of the whole fragment of 42,897 bp.

^b NP indicates no prediction.

^c r indicates reverse direction.