[mira_talk] Sanger and 454 assembly de novo

Hello,
I have tried the de novo assembly with the highlyrepetitive option, but still the result is weird : 

>hyb_lrc1
TGGGAAAGWRDGRGTGAAGGAAGATAAGGAATGGAGGGCTCAAATAGAYSKGCTCGCCCA
CTCCAKRGATKKBRRGTKSKBDGRGATYRKCTKRTRSCTRGYGDKDRGYRSATSRGTAAC
TDBRRAWRRGATDRRATSGAYGAAWRSAKSGAGAAAGCAAAGCCCAATTCTAAGAWGRTG
TSKRSRGAMWACTYYTWCAWRRRATGGGTTGGTTSGAGCAATGATTGTATCGAKRRGCAG
WRSCTTGTCTATAAGGATRKCGAGCCTAAKRGATTYRSGGAGGACGATGTGGATATTCGG
ATYRSCCATTGTGGTATTTGCGGGACTGACGTCCACACCCTGACRAAMRGYTGGGGCTTC
ACGAGCTATCYCGTTGTKGTCGGCCACGAAATCKTCGGCACGGYAGTGAAAGTTGGGAAG
I have a lot of W,K,Ms , does it mean that the reads involved in the contig are too divergent ? 
An other question, what does lrc mean ?

Thanks for your help,

--
Emmanuelle MORIN
UMR 1136 INRA/UHP-Nancy 1
F-54280 Champenoux
Tel : + (33) 3 83 39 41 33
http://mycor.nancy.inra.fr


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