cQC - cDNA Quality Control :  Advanced Submission Form   

Application	Publication	Cleaned Sequences
Source code for cQC. Documentation Please give us your feedback.	Link to the manuscript (as seen in Bioinformatics) Link to the supplementary text Link to the supplementary tables Link to the supplementary figures	Rice   NIAS/FAIS/RIKEN consortium Arabidopsis   RIKEN   Genoscope

Web-based cQC (advanced form)

1	Choose local file containing plain text, FASTA formatted cDNA sequences (no more than 1000 sequences, please):
2	Genome:	Arabadopsis thaliana (version 5) Oryza sativa (TIGR rice pseudomolecules v.3)
3	Enter e-mail address : (since processing may take a while, we will e-mail you the results)
4	Select all parameters:
	MegaBlast E-value cutoff for locating genomic sequence that is similar to a given cDNA sequence:
	Percent ID cut-off:
	Maximum intron size (bp)
	Output files:	Cleaned Sequences   Altered cDNA Frequencies   Alignment of Altered cDNAs   No Genomic Counterpart   Lacking End Similarity   Lacking Internal Similarity   Chimeric Sequences   rDNA-Containing Sequences   IS-Containing Sequences
5		Note: Depending on number of submitted sequences and server load, this may take anywhere from a few seconds to a few hours.

 

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cQC website is hosted by the Biotechnology Computing Facility (BCF)
http://bcf.arl.arizona.edu