The phylogenetic tree obtained from multiple sequence alignment using Clustal Omega is in the following link, From what I read, I understand the values at each node represent the distance. But, I am not able to interpret these distances to quantitatively find out which sequence is close to ALDOA of humans. Any help would be highly appreciated.
You can read information about Clustal Omefa from the authors of this program to which I sent a message claiming some information. From this message you can get the idea that Clustal Omega does not provide you with a truly phylogenetical alignment. If you need an phylogenetical alignment, I recommend to use another program like ClustalW, Muscle, Cofee, etc. To get the phylogenetical distances, you need to run bootstrapping, and you can do it using IQ-tree, for example
Clustal Omega is only a multiple sequence alignment program. It is not a phylogenetic program. Consequently there is no bootstrapping in Clustal Omega. We do use trees in Clustal Omega, but they are guide-trees, I repeat, not phylogenetic trees. Guide-trees are used to define the order in which pair-wise alignments are performed. The pair-wise alignments are done in Clustal Omega using HMMs. The clustering in Clustal Omega (in default mode) is achieved by I am not aware of any program that uses exactly the same clustering approach as Clustal Omega. My suggestion is to use Clustal Omega to produce a multiple sequence alignment and then use any suitable program to estimate a phylogentic tree. ClustalW has the capability to estimate a phylogenetic tree and calculate bootstrap values. Hope that helps. Best wishes, Fabian.
One more thing. After using CLustal Omega, go to the Results Summary tab and download the *ph file
Thus, you can use FigTree to better represent this tree. After playing a little bit with this program, you will see distances represented in a better way