The Use of MPSS for Whole-Genome Transcriptional Analysis in Arabidopsis

Table 2.

Duplications of Genomic Signatures

	17-base signatures							20-base signatures
“Hits”^a	Total locations^b	% of total	# distinct^c	% of distinct	Total locations^b	% of total	# distinct	% of distinct
1	703,161	81.95	703,161	93.27	750,792	87.50	750,792	95.91
2	74,630	8.70	37,315	4.95	43,664	5.09	21,832	2.79
3	19,452	2.27	6,484	0.86	13,437	1.57	4,479	0.57
4	9,528	1.11	2,382	0.32	7,700	0.9	1,925	0.25
5	6,545	0.76	1,309	0.17	5,345	0.62	1,069	0.14
6	4,344	0.51	724	0.10	3,576	0.42	596	0.08
7	3,066	0.36	438	0.06	2,401	0.28	343	0.04
8	2,480	0.29	310	0.04	2,024	0.24	253	0.03
9	2,106	0.25	234	0.03	1,845	0.22	205	0.03
10	1,980	0.23	198	0.03	1,770	0.21	177	0.02
11-20	12,932	1.51	893	0.12	11,521	1.34	801	0.1
21-30	5,622	0.66	229	0.03	4,806	0.56	195	0.02
31-50	4,853	0.57	127	0.02	3,796	0.44	99	0.01
>50	7,320	0.85	90	0.01	5,342	0.62	68	0.01
Total	858,019		753,894		858,019		782,834

↵a “Hits” refers to the total number of occurrences in the genome.
↵b Includes both spliced and unspliced versions of the 6807 signatures that span the intron/exon boundaries (See Table 3).
↵c “Distinct” refers to the number of different sequences found within the set.

This Article

Genome Res. 2004. 14: 1641-1653

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