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BLOSUM type scoring, which is useful for protein alignments, eliminates match and mismatch scoring and instead assigns different substitution weights to each pair of characters.
GASSST currently uses a simple gap and mismatch scoring scheme, whereas affine gap penalties are sometimes necessary.
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For each strain, a match in the marker genotypes was scored 1, and a mismatch scored 0. Strains with missing genotype data at the marker locus were not used in the calculation of the matching coefficient, which was assessed by dividing the total number of matches by the total number of strains with no missing genotypes.
The error rate was calculated for every primer combination as the ratio of mismatches (scoring of 0 vs 1) over phenotypic comparisons in AFLP profiles and subsequently averaged over the three combinations.
Non-apical mismatch score.
Summed mismatch score.
Apical mismatch score.
The apical mismatch score (A-MS) and non-apical mismatch score (NA-MS) were also calculated using the same procedure as with SMS.
The summed mismatch score (SMS) was then calculated by deducting SMDS from SBDS.
Furthermore, apical and non-apical MDS, BDS, and mismatch scores (A- and NA-MDS, A- and NA-BDS, and A- and NA-MS) were calculated.
On the SPECT images, MIBI and BMIPP defects were quantified using a 17-segment model with a 5-point grading system and a summed MIBI defect score (SMDS), summed BMIPP defect score (SBDS), and summed mismatch score (SMS) were calculated.
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