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For the five studied GH families, here subdivided into seven different sub-families, amino acid sequences were collected and aligned (multiple alignments are given in Supplementary Figures S1 S7).
Pairwise or multiple alignments are composed by aligning local pairwise similarities.
Reads with multiple alignments are more likely to be aligned to different locations by different aligners, due to the difference in alignment strategies these aligners employ, as well as the standards of how to randomly choose one alignment to report.
The multiple alignments are given in Dataset S5.
All multiple alignments are available at http://tornado.igb.uiuc.edu/.igb.uiuc.edu/
The predictions on sRNA content made with Rfam, based on multiple alignments, are combined with references of previous experimental and computational studies validating these findings [24] [26].
Similar(27)
Sequence analysis, genomic organization and multiple alignments were performed using Geneious v7.1.8 (Biomatters, Auckland, New Zealand).
Multiple alignments were generated using Multiz.v11.2/roast.v3 (ref. 56) with the tree topology "(Zv9 (hipCom0 ((fr3 gasAcu1) (oryLat2 oreNil2))))".
Multiple alignments were constructed using ClustalW2 program.
Multiple alignments were generated by the MULTALIN program (Corpet 1988).
Multiple alignments were generated at the web site.
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