A phylogenetic tree of HqdA and HqbB found in Sphingomonas sp. strain TTNP3 and respectively corresponding sequences from 21 other bacterial strains that were found to be similar by BLAST analysis was constructed by rendering a ClustalX 2 alignment and using Treeview 1.6.6.
Comparison of the corresponding sequences from the two Bacteroides species revealed the exact attachment site on the bacterial chromosome (Fig. 1B).
Therefore, MultiPipmaker analysis was used to compare the putative mouse ASE sequences with the corresponding sequences from human, chimp, dog and rat.
Because the corresponding sequences from other China regions are very limited, we did not perform the phylogeographic analyses of other HCV subtypes.
The annotated MHC class II region of the giant panda and the trimmed corresponding sequences from other mammals were aligned using LBDot [44], PipMaker ([45]; http://bio.cse.psu.edu/pipmaker), and the AVID algorithm [46], implemented in VISTA ([47]; http://genome.lbl.gov/vista).lbl.gov/vista
Degenerate primers designed to the M. truncatula bHLH gene were used to amplify corresponding sequences from pea and to identify an insertion/deletion (indel) distinguishing the parents of a mapping population [15] that segregates for purple versus white flower color.
PX domains of other proteins have also been shown to be involved in protein-protein interactions [29], [32], and we found that the corresponding sequences from SNX1, SNX2 and SNX3 also could bind CHC.
Based on the multiz-8-way alignments for human, chimp, mouse, rat, dog, chicken, fugu and zebrafish [27], we generated overlaid versions of the human genome with corresponding sequences from the other seven species.
These primers were used to amplify the corresponding sequences from Brassica napus cv.
The coordinates for human introns were used to extract the corresponding sequences from other vertebrates.
We then used the gene feature coordinates to extract corresponding sequences from the genome sequence.
