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T.Y.BSc SEMESTER V BOTANY PAPER III UNIT III BAR CODING

T.Y.BSc SEMESTER V BOTANY PAPER III UNIT III BAR CODING. By Mrs. S. S.HAJIRNIS DEPARTMENT OF BOTANY SATISH PRADHAN DNYANASADHANA COLLEGE,THANE(W). BAR CODING. MEGA 6.Exec. File - Mega 6. Exec file session Click open Go to (wherever) the folder is stored e.g. Desktop Click ok

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T.Y.BSc SEMESTER V BOTANY PAPER III UNIT III BAR CODING

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  1. T.Y.BSc SEMESTER VBOTANY PAPER III UNIT IIIBAR CODING By Mrs. S. S.HAJIRNIS DEPARTMENT OF BOTANY SATISH PRADHAN DNYANASADHANA COLLEGE,THANE(W)

  2. BAR CODING MEGA 6.Exec.

  3. File - Mega 6. Exec file session Click open Go to (wherever) the folder is stored e.g. Desktop Click ok dendro 5 proper sequence. FAS Click ok Go to ------Analyze Click ok Nucleotide ANALYSE

  4. Click Ok Protein coding nucleotide sequence data Click Ok Select Genetic Code Click Ok Standard Click TA Click Species aligned Click C (conserved sites) TA

  5. Click V -----(Variable sites) Click Pi-----(Parsim-info sites) Click Minimise the active window Go to task bar Distance Click Compute pairwise Distance click

  6. Reuse currently active data Click Analysis Preference Click Kimura 2-parameter model Click Compute click Data obtained

  7. Convert data into excel sheet Go to file Click Export print distance click XL Microsoft Excel Workbook Click Print Save Matrix Click Open Excel File Select Conditional Formatting

  8. Select column B-E Top / Bottom Rules Click More rules Click New formatting rules Click Format only Top and Bottom Ranked Values Click Format Fill colour (preferably a light colour) ok Top (only 1 value)

  9. In excel file Go to Top / Bottom Rules Click More rules Click New formatting rules Click Format only Top and Bottom Ranked Values Click Bottom (only 1 value) Format Ok Top most value Highlighted Go to Select column B-E with all values

  10. Fill colour (preferably a light colour) Ok Lowest value highlighted Use formula to find out the % species identification Total no. of species – no of species with zero distance × 100 Total no. of species

  11. Phylogenetic Tree

  12. Minimise the Excel Sheet Go to MEGA 6. exe. Phylogeny Click Construct / Test Neighbour joining Tree Use currently active data Click Analysis Preferences Test of Phylogeny Click

  13. Boot Strap Method (loop) check the similarities between the sequences 1000 times Enter 1000 instead of 500 Compute Phylogeny tree obtained % significance can be checked Take a print out of the result obtained

  14. THANK YOU……..

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