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The presence of multiple contigs in a cluster could be due to possible alternative transcripts, paralogy or domain sharing.
For genes represented by multiple contigs in this library, the contig with the highest number of contributing sequences is shown.
Because one-third of the contigs hit the same proteins as other contigs in our data, this indicates that large transcripts were often split among multiple contigs in our assembly.
The diploid species were found to have many more SNPs exhibiting within-species redundancy, which are marker sequences that are identical but generated from multiple contigs in the assembly, than the tetraploid species.
For genes represented by multiple contigs in a given library or across tissues (i.e. in different forward libraries), the contig with the highest number of contributing sequences is shown.
Alternatively we can not rule out the fact that genes were split in multiple contigs in the 454 assembly because of the lack of coverage compared to Illumina's short reads.
Similar(54)
In cases where multiple contigs were obtained (e.g., in Chromochloris zofingiensis), the contigs were subjected to a series of reference assemblies in Geneious (by mapping reads to the mt fragments and subsequently to the longer resulting fragments, often for 25 iterations or more) until we reached a point where the fragments could be confidently joined.
Alternative splicing can also result in multiple contigs representing the same event.
Second, EST assembly sometimes resulted in multiple contigs that contained an identical CDS.
Thus far, a read can occur in multiple contigs, which are to be merged.
As a result, more and more genomes were published while still in multiple contigs and varying quality.
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Justyna Jupowicz-Kozak
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