BIOC1805 notes

BIOC1805 notes - P.26: require 11 out of 16 to classify as...

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Assignment Wordsize threshold a) BLOSUM62: A S I L A 4 1 -1 -1 S 1 4 -2 -2 I -1 -2 4 2 L -1 -2 2 4 SIL SA LII SL initiate hit of SL A SS LAIAIA SS = 5 SA = 8 -> SIL SA LIISL A SS LAIAIA SS = 4; AS = 1 Total score = 5 As negative score total score drop 2: (smaller) terminate early, may miss some important information 4: (larger) extent further down, but doesn’t really help High scoring alignment: highest cumulative score Boundary for high score alignment **P.13,8,24,25,27
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P.27 Share lower degree of similarity Query matches with the top 3 sequences More likely to give the same amino acid
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Unformatted text preview: P.26: require 11 out of 16 to classify as a match~ 0:can be match/mismatch *3 rd codon~not significant ~>110110110 code for the same amino acid P.19 2 initial word match P.17 test statistics Lower E: more significant Based on significant ?? p-value! P.34 another variation of BLAST = Translated BLAST Done with protein, but the query can be DNA Translate the query sequence compare the sequence Tblastx: Both are nucleotides...
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This note was uploaded on 07/29/2010 for the course BIOC BIOC1805 taught by Professor Dr.brianwong during the Summer '09 term at HKU.

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BIOC1805 notes - P.26: require 11 out of 16 to classify as...

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