GC content and average fold coverage of contigs
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Hi, That mean you are in low complexity genome zone and probably your assembler/aligner had difficulty merging contigs/reads :)
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If there is other way around meaning low GC content but high fold coverage?
Not sure to understand your question now :) can you give some details ?
I am trying to understand a graph. this graph is plotted between % GC content and average fold coverage. Some point on the graph has low % GC content but high fold coverage and vice versa. I am trying to understand what this means.
Yes but if you are low %GC content you have low complexity sequence too (in an other word you are high %TA), that's also a problems for aligner/assembler. I'm sure to answer to your questions.... In you graph i don't know the normalization they use by species like number of reads per sequencing etc, but it could have an effect on Average Coverage fold.