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This was apparent during the study, especially where primary school students worked exclusively on their stories in the class, secondary school students worked on their stories, both inside and outside the class.
In the original design, the Yamato class' secondary armament comprised twelve 15.5 cm/60 Type 3 guns mounted in four triple turrets (one forward, one aft, two midships), and twelve 12.7 cm/40 Type 89 guns in six double-turrets (three on each side amidships).
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Entrance examinations are designed to admit competent graduates of first-class secondary schools.
We treat sequence profiles and 3-class secondary structure as the basis features and then evaluate the value added by the 8-class secondary structure and 3-class solvent accessibility.
We define the environment of a template residue as the combination of its solvent accessibility state and 3-class secondary structure type, which results in nine environment types.
As shown in Table 6, the 8-class secondary structure and 3-class solvent accessibility improve the alignment accuracy by 0.01 and 0.02, respectively, regardless of the training approach.
Instead we use context-specific gap penalty depending on the following features: sequence profile, amino acid identity, hydropathy index, both three-class and eight-class secondary structure and three-state solvent accessibility.
We predict the three-class and eight-class secondary structure types of a target protein using PSIPRED (McGuffin et al., 2000) and our in-house tool RaptorX-SS8 (Wang et al., 2011), respectively.
We also predict the 3-class and 8-class secondary structure types for the target using PSIPRED (McGuffin et al., 2000 ) and our in-house tool RaptorX-SS8 (Wang et al., 2010 ), respectively.
We derive the position-specific features from the alignment of the sequence homologs of a given protein while the context-specific features include amino acid identify, hydropathy index, both 3-class and 8-class secondary structure, and solvent accessibility.
The 3-class SSE is predicted by PSIPRED [ 8] which is more accurate but contains less information, while the 8-class secondary structure element is predicted by RaptorX-SS8 [ 45] which is less accurate but contains more information.
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