Pairwise sequence alignment
Use Needle and Water to align the following sequence pairs with different scoring matrix and gap penalty, compare the results:
- 'AFATCAT" and 'AFASTCAT'
- 'THEFASTCATCATCHESAFATRAT' and 'THEFATCATCATCHESADEADRAT'
- 'AREALFRIENDISAFRIENDINNEED' and 'AFRIENDINNEEDISAFRIENDINDEED'
Use Needle and Water to align the following sequence pairs with different scoring matrix and gap penalty, compare the results:
- Human hemoglobing alpha chain (Swiss-Prot Accession: P69905) and human hemoglobing beta chain (Swiss-Prot Accession: P68871)
- Human hemoglobing alpha chain (Swiss-Prot Accession: P69905) and yellow lupine leghemoglobin (Swiss-Prot Accession: P02240)
- Pisum sativum post-floral specific protein 1 (PPF-1, Swiss-Prot Accession: Q9FY06) and Arabidopsis inner membrane protein (ALBINO3, Swiss-Prot Accession: Q8LBP4)
- The coding sequence of (PPF-1, GenBank Accession: Y12618) and (ALBINO3, GenBank Accession: U89272)
- The full length mRNA sequence of (PPF-1, GenBank Accession:Y12618) and (ALBINO3, GenBank Accession: U89272)
- The rice histidine transporter (GenPept Accession: CAD89802) and the Arabidopsis lysine and histidine transporter (GenPet Accession: AAC49885)
Use Needle to align the following three sequences between each other, make a summary of your analysis results:
- The protein sequence of human, mouse and rat hemoglobing alpha chain (Swiss-Prot entry name: HBA_HUMAN, HBA_MOUSE, HBA_RAT)
- The coding sequence of human, mouse and rat hemoglobing alpha chain (GenBank Accession: V00493, V00714, M17083)