SDNAShortPatternItems Struct Reference

Search Toolkit Book for SDNAShortPatternItems

Structure containing auxiliary items needed for a DNA search with a pattern that fits in a single word. More...

#include <algo/blast/core/pattern.h>

Public Attributes
Uint4 *	DNAwhichPrefixPosPtr
	Prefix position array for DNA patterns. More...
Uint4 *	DNAwhichSuffixPosPtr
	Suffix position array for DNA patterns. More...
Uint4	DNAwhichPrefixPositions [256]
	Where prefix of DNA 4-mer matches pattern. More...
Uint4	DNAwhichSuffixPositions [256]
	Where suffix of DNA 4-mer matches pattern. More...

Detailed Description

Structure containing auxiliary items needed for a DNA search with a pattern that fits in a single word.

Definition at line 82 of file pattern.h.

Member Data Documentation

DNAwhichPrefixPositions

Uint4 SDNAShortPatternItems::DNAwhichPrefixPositions[256]

Where prefix of DNA 4-mer matches pattern.

Definition at line 86 of file pattern.h.

Referenced by s_InitDNAPattern().

DNAwhichPrefixPosPtr

Uint4* SDNAShortPatternItems::DNAwhichPrefixPosPtr

Prefix position array for DNA patterns.

Definition at line 83 of file pattern.h.

Referenced by s_FindHitsShortDNA(), s_FindHitsVeryLong(), and s_InitDNAPattern().

DNAwhichSuffixPositions

Uint4 SDNAShortPatternItems::DNAwhichSuffixPositions[256]

Where suffix of DNA 4-mer matches pattern.

Definition at line 88 of file pattern.h.

Referenced by s_InitDNAPattern().

DNAwhichSuffixPosPtr

Uint4* SDNAShortPatternItems::DNAwhichSuffixPosPtr

Suffix position array for DNA patterns.

Definition at line 84 of file pattern.h.

Referenced by s_FindHitsShortDNA(), s_FindHitsVeryLong(), and s_InitDNAPattern().

---

The documentation for this struct was generated from the following file:

• include/algo/blast/core/pattern.h