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EGassembler

Aligns and merges sequence fragments resulting from shotgun sequencing or gene transcripts (EST) fragments in order to reconstruct the original segment or gene
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Sequence Cleaning Repeat Masking Vector Masking Organelle Masking Sequence Assembly


PROJECT NAME EMAIL ADDRESS

Query sequences

TEXT DATA , Please paste your sequences (FASTA format)
FILE UPLOAD(FASTA format)

Options

number of CPUs
Minimum length of matching word(-minmatch)
Minimum alignment score(-minscore)
Number of potential vector bases at beginning of each read(-vector_bound).
Maximum length of matching word(-maxmatch)
matching alignments(-alignment)
1/2 band width for banded SWAT searches, Bandwidth 0 (Zero) can be used to find gap-free alignments(-bandwidth)
Level of masking for reporting a match(-masklevel)
  • 0 report only the single highest scoring match for each query
  • 100 report any match whose domain is not completely contained within a higher scoring match
  • 101 report all matches
Vector Library
Using your custom vector library
Using EGvec vector library (Our custom vectors library)
Using NCBI's vector library
Using EMBL vector library
Home KEGG GenomeNet Kanehisa Laboratory

Reference:
Masoudi-Nejad A, Tonomura K, Kawashima S, Moriya Y, Suzuki M, Itoh M, Kanehisa M, Endo T, Goto S (2006)
EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments. Nucleic Acids Res. 34:W459-462.