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    <p>This will work:</p> <pre><code>&gt;&gt;&gt; import re &gt;&gt;&gt; rx_sequence=re.compile(r"^(.+?)\n\n((?:[A-Z]+\n)+)",re.MULTILINE) &gt;&gt;&gt; rx_blanks=re.compile(r"\W+") # to remove blanks and newlines &gt;&gt;&gt; text="""Some varying text1 ... ... AAABBBBBBCCCCCCDDDDDDD ... EEEEEEEFFFFFFFFGGGGGGG ... HHHHHHIIIIIJJJJJJJKKKK ... ... Some varying text 2 ... ... LLLLLMMMMMMNNNNNNNOOOO ... PPPPPPPQQQQQQRRRRRRSSS ... TTTTTUUUUUVVVVVVWWWWWW ... """ &gt;&gt;&gt; for match in rx_sequence.finditer(text): ... title, sequence = match.groups() ... title = title.strip() ... sequence = rx_blanks.sub("",sequence) ... print "Title:",title ... print "Sequence:",sequence ... print ... Title: Some varying text1 Sequence: AAABBBBBBCCCCCCDDDDDDDEEEEEEEFFFFFFFFGGGGGGGHHHHHHIIIIIJJJJJJJKKKK Title: Some varying text 2 Sequence: LLLLLMMMMMMNNNNNNNOOOOPPPPPPPQQQQQQRRRRRRSSSTTTTTUUUUUVVVVVVWWWWWW </code></pre> <hr> <p>Some explanation about this regular expression might be useful: <code>^(.+?)\n\n((?:[A-Z]+\n)+)</code></p> <ul> <li>The first character (<code>^</code>) means "starting at the beginning of a line". Be aware that it does not match the newline itself (same for $: it means "just before a newline", but it does not match the newline itself).</li> <li>Then <code>(.+?)\n\n</code> means "match as few characters as possible (all characters are allowed) until you reach two newlines". The result (without the newlines) is put in the first group.</li> <li><code>[A-Z]+\n</code> means "match as many upper case letters as possible until you reach a newline. This defines what I will call a <em>textline</em>.</li> <li><code>((?:</code><em>textline</em><code>)+)</code> means match one or more <em>textlines</em> but do not put each line in a group. Instead, put <strong>all</strong> the <em>textlines</em> in one group.</li> <li>You could add a final <code>\n</code> in the regular expression if you want to enforce a double newline at the end.</li> <li>Also, if you are not sure about what type of newline you will get (<code>\n</code> or <code>\r</code> or <code>\r\n</code>) then just fix the regular expression by replacing every occurrence of <code>\n</code> by <code>(?:\n|\r\n?)</code>.</li> </ul>
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    1. PORegular expression matching a multiline block of text
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    1. COmatch() only returns one match, at the very beginning of the target text, but the OP said there would be hundreds of matches per file. I think you would want finditer() instead.
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      1. USAlan Moore
    2. CO@Alan: Just fixed, thanks.
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