Bonjour,
I have assembled a simulated metagenome of 20 genomes. I have 64 pairs each
containing 23,5M pairs. I have been using Ray v2.3.1 using 2048 cores.
For one of the genomes I seem to be getting duplicate contigs.
I have mapped the assembly against itself using MUMmer and found out that
some of the contigs are exactly the same. MUMmer shows these kind of hits:
[S1] [E2] [S2] [E2] [LEN 1] [LEN 2] [% IDY] [LEN R] [LEN Q] [COV R] [COV Q]
[REF] [QRY]
1 825006 825006 1 825006 825006 100.00 825006 825006
100.00 100.00 contig-859 contig-717
For an explanation of the format:
http://mummer.sourceforge.net/manual/#coords
Do you have any idea how this might happen?
Best regards,
Ino
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