Questions tagged [mauve]
Questions regarding the Multiple Genome Alignment software Mauve developed by the Darling lab.
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Drawing synteny using CIRCOS from progressive MAUVE alignment
I am using Mauve app to align two whole genomes. I've aligned these genomes (gbk files) with the progressive Mauve aligner, and I got sp.sslist, sp.xmfa, sp.guide_tree,sp.backbone file, sp.bbcols etc ...
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Extracting Sequence Unique to a Certain Genome
I have two genomes with high similarity. But I found out that one genome has a longer sequence of about 200 kbp. I try to align the sequence with Mauve. How can I extract this unique 200 kbp?
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What does it mean if aligned genomes are not of the same length?
I am aligning 4 genomes of Psuedomonas chlororaphis using progressive mauve software. Command used:
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votes
1
answer
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Find a map/correspondence between two versions of a genome
I am working with two versions of the C. elegans genome. I am finding interesting regions (specifically, tRNA genes) in version 1 and then I would like to know if version 2 also has a tRNA gene in ...
- 2,449
7
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3
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visualisation of genome alignment
I was asked to check the synteny of some genes in two genome assemblies of the same species (PacBio & Illumina). I was given two scaffolds couples (so 4 scaffolds total) in the Illumina genome and ...
- 2,656
2
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1
answer
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Can I export the SNPs between whole genome alignments using the command line?
I am using Mauve to align two whole genomes. I use the following command to get the alignment in xmfa format:
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