The original FSSP alignments are reformatted according to the following information: sub-family name and PDB accession number of the leader sequence, number of members (≥8), PDB accession numbers of these members, associated structural FSSP Z indexes, alignment length, corresponding aligned sequences and aligned secondary structures (assigned through DSSP (Kabsch and Sander, 1983)).
We repeated the above feature selection restricted to global features (features based on the entire protein, such as amino acid and secondary structure compositions), amino acid indices, alignment-free secondary structure predictions, and the biophysical amino acid properties.
In this paper we propose the FM-index of alignment, a compressed index for similar strings with the functionalities of pattern search and random access.
To this end, index of alignment degree (IAD) was put forward to try out in the engineering application of transfer alignment accuracy evaluation and identification.
The Economist Intelligence Unit (EIU) [55] developed a green city index in alignment with green management.
22 The rate of the decrease of the circularity index and alignment angle follows the time course for HS upregulation under laminar shear stress (Fig 4).
For circularity index and alignment angle data that are not normally distributed, the Wilcoxon test for unpaired data was used to compare two groups and Kruskal Wallis test was used to compare data from more than 2 groups.
At the knee joint, where obesity increases the risk of developing osteoarthritis by twofold to 10-fold [ 1, 2], local biomechanical factors associated with body mass index, limb alignment, and quadriceps muscle strength can all influence both the onset and progression of knee osteoarthritis [ 3- 5].
The FM-index of alignment is an FM-index of this suffix array of alignment.
In this paper we propose the FM-index of alignment with gaps, a realistic index for similar strings, which allows gaps in their alignment.
