The phrase "alignment identifiers" is correct and usable in written English.
It can be used in contexts related to data organization, programming, or systems where specific identifiers are needed to ensure proper alignment of elements.
Example: "In our database, we use alignment identifiers to ensure that all entries are correctly aligned with their corresponding categories."
Alternatives: "alignment tags" or "alignment keys".
The RPS-BLAST outputs were similarly processed using an in-house script, retaining the following information from the top-scoring alignments: gene identifier, description, score and e-value.
For each comparison, a report containing sequence identifiers, alignment length, coordinates of the most similar regions, percentage of identity, number of gaps, raw and bit scores and E-value was returned.
TSP55 could be annotated as it contains the DUF19 domain (match over 126 amino acids in alignment; see eg, GenBank identifier GE637487.1).
Based on the tandem duplication hypothesis, we also investigated whether the sequence similarity is higher for any mature sequence pairs with different pre-microRNA identifiers (all alignments are available in Additional file 4).
The distribution of rate values for alignment positions by AIR-Identifier was similar, although intron regions were significantly more highly variable than all three exon partitions, and variability of tRNA loci was significantly higher on average than rRNA and exon regions with the exclusion of ycf 1 and ycf 2 (Additional File 3).
Additionally, the corresponding phylogenetic trees, PFAM-A alignments and accession identifier data on all sequences including those that could not be retrieved are provided in the database.
The file bwtsw2_aux.c was modified to generate an alternative output, which presents a lightweight tab-separated output format containing only the necessary data required by DeconSeq (query identifier, reference identifier, query coverage and alignment identity).
Singleton sequences are identified by sequence identifiers for SRA003728, with the size (in bp) and quality (% identity) of the alignment between the 454 sequence and the Sanger sequence.
A good correlation in response between platforms was found among the 48 genes in the NIEHS data set that could be matched to probes on the Affymetrix RGU34A array by UniGene identifier or sequence alignment.
Problems incurred by sequence alignment on long descriptions as sequence identifiers are also resolved.
