I have 414 sequences of LRR gene family from tobacco.I want to construct a phylogenetic tree using MEGA 6.but it gives an erroe but if I try 100/100 sequences one by one it gives no error.so I thought may be due to the high number. I have no experience with such a large number of sequences. What should I do now - please guide me?
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written
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star_143_101 •
2 answers
I would recommend generating the alignment using the actual algorithm that you want to use, then import the alignment back into MEGA for doing the tree.
If you don't have a machine powerful enough, try out somewhere like: https://www.ebi.ac.uk/Tools/msa/muscle.
Also note that trying to present so many sequences in a tree might be hard to interpret. I used to use http://topiaryexplorer.sourceforge.net/, but it might be out dated now.
I'd suggest you to use the CIPRES portal for phylogenetics analysis :) it doesn't have MEGA though.
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