Multiple alignments collections

HMMER [96] is a freely distributable collection of software for protein-sequence analysis using profile HMMs. A profile HMM [97] is a statistical model of a multiple alignment of sequences drawn from a putative protein family. It captures position-specific information about the relative degree of conservation of different columns in an alignment and the relative likelihood of particular residues occurring in specific positions. Profile HMMs can thus capture the essential features of a structural or functional domain. 

Collect significant hits and construct a multiple alignment table between the query sequence and the significant local matches. 

Figure 12.23 (Above) Polarized FT-IR spectra of multiple aligned electrospun fibers collected on aluminum foil across a 10 im gap. (Below) Polarized AFM-IR spectra collected...

Multiple-collection techniques. Uranium. Table 1 shows a typical protocol used by multi-collector instruments (equipped with one ion counting channel) both in MC-TIMS, MC-ICPMS and LA-MC-ICPMS (e.g., Cohen et al. 1992 Stirling et al. 1995 Luo et al. 1997 Stirling et al. 2000 Pietruszka et al. 2002). A first sequence monitors the atomic ratios between and by aligning Faraday collectors for masses (10 ... 

TIGRFAMS [15] is an annotated collection of protein families, each described using curated multiple sequence alignments and HMMs. 

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