> Dear Sir/Miss,
>
>
> I want to do the chloroplast genome alignment by Progressive Mauve.
>
> How do I choose the related parameters (such as match seed weight，
> minimum LCB score…) in advance?
>
> Is the default setting OK? No matter the species number and the
> diversity among them?
>
> How can I identify the best alignment results or what is the best
> alignment results?
>
> Dose it make sense that I do the alignment with different parameters
> and compare the different results? If so，what should I do?
>
>
> Thank you very much.
>
> Best Regards,
>
>
> Dr. Xy Ma
>
> Guangzhou University of Chinese Medicinesprut
>
>
>
>
>
>
>
>
>
>
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