Table 1 Overview of sequencing, assembly, differential expressed genes and annotations
From: Large-scale transcriptional profiling of lignified tissues in Tectona grandis
Raw data | |
|---|---|
Total number of reads without cleaning | 192,841,634 |
Size without cleaning approx. (Gigabases) | 38.6 |
Sequence length without cleaning (bp) | 100 |
Total number of reads after cleaning | 174,528,668 |
Size after cleaning approx. (Gigabases) | 34.9 |
Sequence length after cleaning (bp) | 75-100 |
% Erased reads | 9.5 |
Assembly with Trinity # transcripts | Contig N50 (bp) |
Stem secondary xylem Transcriptome 48,633 | 2,291 |
Branch secondary xylem Transcriptome 59,771 | 2,365 |
Flower, leaf, root, seedling Transcriptome 65,592 | 2,178 |
Differential expression | |
Number of most expressed transcripts in Stem second. Xyl. | 1,502 |
Number of most expressed transcripts in Branch second. Xyl. | 931 |
Annotations by Blast2Go | |
Number of predicted CDS (partial/complete) in Stem second. Xyl. | 669 |
Number of predicted CDS (partial/complete) in Branch second. Xyl. | 603 |