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<h1 class="toc">Module pairwise2</h1>
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<h2 class="toc">Classes</h2>
<a target="mainFrame" href="Bio.pairwise2.affine_penalty-class.html"
>affine_penalty</a><br /> <a target="mainFrame" href="Bio.pairwise2.dictionary_match-class.html"
>dictionary_match</a><br /> <a target="mainFrame" href="Bio.pairwise2.identity_match-class.html"
>identity_match</a><br /> <h2 class="toc">Functions</h2>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_align"
>_align</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_clean_alignments"
>_clean_alignments</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_find_global_start"
>_find_global_start</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_find_local_start"
>_find_local_start</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_find_start"
>_find_start</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_lpad"
>_lpad</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_lpad_until_equal"
>_lpad_until_equal</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_make_score_matrix_fast"
>_make_score_matrix_fast</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_make_score_matrix_generic"
>_make_score_matrix_generic</a><br /> </div>
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<a target="mainFrame" href="Bio.pairwise2-module.html#_pad"
>_pad</a><br /> </div>
<div class="private">
<a target="mainFrame" href="Bio.pairwise2-module.html#_pad_until_equal"
>_pad_until_equal</a><br /> </div>
<div class="private">
<a target="mainFrame" href="Bio.pairwise2-module.html#_recover_alignments"
>_recover_alignments</a><br /> </div>
<a target="mainFrame" href="Bio.pairwise2-module.html#calc_affine_penalty"
>calc_affine_penalty</a><br /> <a target="mainFrame" href="Bio.pairwise2-module.html#format_alignment"
>format_alignment</a><br /> <a target="mainFrame" href="Bio.pairwise2-module.html#print_matrix"
>print_matrix</a><br /> <a target="mainFrame" href="Bio.pairwise2-module.html#rint"
>rint</a><br /> <h2 class="toc">Variables</h2>
<a target="mainFrame" href="Bio.pairwise2-module.html#MAX_ALIGNMENTS"
>MAX_ALIGNMENTS</a><br /> <div class="private">
<a target="mainFrame" href="Bio.pairwise2-module.html#_PRECISION"
>_PRECISION</a><br /> </div>
<a target="mainFrame" href="Bio.pairwise2-module.html#align"
>align</a><br /> <a target="mainFrame" href="Bio.pairwise2-module.html#this_module"
>this_module</a><br /><hr />
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