|
Summary of data obtained from the LongSAGE libraries |
||||||
| LongSAGE library |
||||||
|
|
||||||
| T33 |
T65 |
T90 |
L33 |
L65 |
L90 |
|
|
|
||||||
| Total tags1 |
50,450 |
53,927 |
53,761 |
53,104 |
54,483 |
51,188 |
| Unique tags2 |
25,738 |
24,655 |
22,035 |
24,408 |
24,829 |
22,464 |
| Unique tags/total tags (%)3 |
51.0 |
45.7 |
41.0 |
46.0 |
45.6 |
43.9 |
| Tags/clone |
23.4 |
26.5 |
31.7 |
25.97 |
24.8 |
25.9 |
| Average GC content4 |
45.16 |
50.02 |
44.56 |
47.24 |
47.15 |
46.20 |
| Remaining total tags5 |
32,722 (64.8) |
37,058 (68.6) |
40,074 (74.5) |
37,135 (69.8) |
37,948 (69.6) |
36,596 (71.4) |
| Remaining unique tags6 |
8,081 |
7,786 |
8,348 |
8,439 |
8,294 |
7,872 |
| Unmatched tags7 |
2,458 (30.4%) |
2,377 (30.5%) |
2,621 (31.4%) |
2,362 (28.0%) |
2,740 (33.0%) |
2,513 (31.9%) |
| Matched tags8 |
5,623 (69.6%) |
5,409 (69.5%) |
5,727 (68.6%) |
6,077 (72.0%) |
5,554 (67%) |
5,359 (68.1%) |
| Single match9 |
5,437 (96.7%) |
5,249 (96.9%) |
5,550 (97%) |
5,887 (97%) |
5,358 (96.8%) |
5,163 (96.7%) |
| Multiple matches10 |
188 (3.3%) |
169 (3.1%) |
174 (3.0%) |
185 (3.0%) |
175 (3.2%) |
176 (3.3%) |
|
1Total tags were obtained in each library. LongSAGE tags containing wildcard characters not in {A, C, G, T} were discarded. 2Unique tags were obtained in each library. 3The differences in accrual rates (the ratio of unique tags to total tags) indicate that the number of genes expressed regularly changed during myogenesis. 4For an explanation of this value, in the context of the quality of a SAGE library, see Margulies et al. [31]. 5The total tags remaining in each library after eliminating the unique tags with a frequency <2 in all six libraries. The percentage of non-singleton tags is shown in parentheses. 6The unique tags remaining in each library after eliminating the unique tags with a frequency <2 in all six libraries. 7Unique tags unmatched with any known sequence. The values in parentheses indicate the percentage of unique tags in the total. 8Unique tags that correspond to UniGene entries. The values in parentheses indicate the percentage of unique tags in the total. 9Unique tags matched with a single UniGene sequence. 10Unique tags matched with more than one UniGene sequence. T, Tongcheng; L, Landrace; 33, 65 and 90 refer to days post coitus. | ||||||
Tang et al. Genome Biology 2007 8:R115 doi:10.1186/gb-2007-8-6-r115 |
||||||