Improve behavior of low complexity anchor pruning in surject #4354
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Changelog Entry
To be copied to the draft changelog by merger:
vg surjecthas improved base-level alignment accuracy with long readsDescription
Previously, we were leaning on the anchor sequence itself to determine whether it was low complexity, and should therefore be pruned. However, for short anchors, there frequently wasn't enough evidence within the anchor to determine whether the sequence was low complexity. We now pad short anchors with some of the surrounding read sequence before testing.