1. Download modeltest3.7
2. Copy the modeltest3.7 folder > rename it to modeltest3.7 (remove the word 'folder')
3. Make a new folder > name it (e.g. COIfinal) > put it on the desktop
4. Align sequence in ClustalX and save it as nexus file (e.g. range 30-685) > name it (e.g. COI.nxs)
5. Copy and paste both modeltest3.7 and COI.nxs into the COIfinal folder
6. Open PAUP, execute COI..nxs
7. Then, open paupblock folder, execute modelblockPAUPb10
8. This will take several minutes > until it says completed at the PAUP software
9. Next, open modeltest3.7 folder > paupblock > you will find a file name model.scores
10. Rename model.scores > e.g. COI2015.scores
11. Copy the COI2015.scores into modeltest3.7 > bin
12. Go to start menu > All programs > Accessories > Command prompt
13. Once the program starts, type cd > then drag-and-drop your file name bin into the command
14. Make sure there is space between cd and the file-drop, Delete the marks " "
15. Press enter
16. Type modeltest3.7.win<COI2015.scores>new file name (e.g. COIoutput.modeltest)
17. Press enter, you can see C: ....>, then close the Command prompt
18. A new output file had just been created in your bin folder
19. Open this file in text or notepad
20. Copy and paste the value : (e.g. Lset Base=equal Nst=2 TRatio=2.0111 Rates=gamma Shape=0.6147 Pinvar=0.7441)
21. Run PAUP as usual
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