Although the now Erie-Lackawanna Railway continued to run the Montclair Branch, it reduced service, reducing the once two-rail alignment to one lone track, and removed most of the tracks at Lackawanna Terminal in Montclair.
For gene-specific probes the same definition was used with respect to alignments to transcript sequences of one gene (instead of alignment to one transcript).
The chimeric RNAs showed partial alignment to two genes, which often are present on different chromosomes.
112 Atlantic salmon reference genome contigs showed alignment to two or more linkage groups.
The particles were subjected to a final round of alignment to eight references in SPIDER and MSA with hierarchical ascendant classification into 150 classes in IMAGIC.
As described above, 110 and 2 Atlantic salmon genome contigs showed significant alignment to two and three Atlantic salmon linkage groups respectively (Table 5).
These issues may appear to undermine the MGS approach, but we obtain valuable information on the genomic and evolutionary diversity in Coleoptera through a comparative approach that uses two phylogenetically nested metagenomes and their alignment to two fully sequenced reference genomes representing different clades.
To verify that the conservation constraints in the model worked well overall, we examined over what evolutionary distance our predictions were conserved in both sequence and structure, considering alignments to eleven vertebrate genomes as we did when computing input features for SVM2.
The Symap alignment, from 294 kb to 361 kb on peach scaffold_1, is based on sequence alignments to two overgo probes: CCall_contig366_v2 (source of CmSNP00620) and CCall_contig3045_v2 (source of CmSNP00614).
In particular, as we show in Supplementary Note 1 in Additional file 1, based on parameter estimates for optical mapping data, restricting alignments to eight missing cuts or five false cuts, consecutively, should retain high sensitivity.
