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Alignments
assignSource
clearGaps
clippedBeginPosition
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col
cols
countCharacters
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createSource
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globalAlignment
globalMsaAlignment
heaviestIncreasingSubsequence
insertGap
insertGaps
integrateAlign
isGap
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localAlignment
longestCommonSubsequence
longestIncreasingSubsequence
matchRefinement
moveSource
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removeGap
removeGaps
row
rows
scoreGap
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setScoreGap
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setScoreGapOpen
setScoreMatch
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setSource
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