Color channels were carefully aligned using alignment parameter from control measurements with 0.5 µm diameter multi-spectral fluorescent beads (Life technologies).
This disagreement prompted us to evaluate carefully the alignment of the entire region.
Nipponbare based on a carefully curated alignment of protein sequences (derived from revised gene models for several of the serpins); (ii) showed the extent to which genomic PCR using primer sets designed for O. sativa cv.
For the first problem, one cannot offer any easy solution, except for providing a carefully annotated alignment that, alongside other works [ 17, 34, 90], can give a useful template for adding new sequences.
By carefully controlling the alignment, ion energy, ion fluence, and etching current density, a 3D woodpile structure with complete band gap lying in the mid-infrared (IR) range should be possible.
We carefully inspected the alignment to verify its consistency with the literature.
With a carefully chosen reference alignment, hmmalign's accuracy was in some cases comparable to that of PAGAN.
Finally, the gene models were manually corrected after carefully checked the alignment between SmMYB genes and MYBs from other plant species.
After carefully considering the alignment results, we predicted at least one target for 7 miRNAs and a total of 100 potential targets for 14 miRNAs (Additional file 7).
The authors need to carefully inspect the alignments to detect obscure sequences.
In order to test if the identification of FOX-domain matrices is merely an effect of the general AT-richness of the CNS regions we check carefully results of alignments of all other "AT-rich" matrices in TRANSFAC.
