Why Does Some Short-Read De Novo Assembly Tool Need The Same Length Of Sequence

Question

[2011101101]

There are some assembly tool Taipan,SHARCGS,an so on.the input file need the sequence have the same length,why? My sequence between 20-30bp,which tool or soft can I use ? thank you

Answer 1

[Joseph Hughes]

There is no good reason why the programs can only deal with the same read lengths for the pair, it is just that the pairs are always the same length after sequencing and usually the trimming and quality checking software for paired-end reads keeps or tries to keep the same read length for the pair.

I believe Abyss can deal with pairs that have different read lengths for a pair.