# Chimeric sequence vs. recombination breakpoint?

**URL:** <https://forum.mothur.org/t/chimeric-sequence-vs-recombination-breakpoint/184>\
**Category:** Journal club\
**Created:** [April 1, 2010, 2:19pm UTC](https://forum.mothur.org/t/chimeric-sequence-vs-recombination-breakpoint/184 "2010-04-01T14:19:15Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![mbakker](https://avatars.discourse-cdn.com/v4/letter/m/82dd89/32.png) [@mbakker](https://forum.mothur.org/u/mbakker)\
**Post date:** [April 1, 2010, 2:19pm UTC](https://forum.mothur.org/t/chimeric-sequence-vs-recombination-breakpoint/184/1 "2010-04-01T14:19:15Z")

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I just came across this algorithm for detecting recombination breakpoints, and it has got me wondering whether some of the sequences we flag as chimeric might simply include a recombination breakpoint. Thoughts, anyone?

Bioinformatics. 2006 Dec 15;22(24):3096-8. Epub 2006 Nov 16.  
GARD: a genetic algorithm for recombination detection.  
Kosakovsky Pond SL, Posada D, Gravenor MB, Woelk CH, Frost SD.

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**Author:** ![laalaa99stl](https://avatars.discourse-cdn.com/v4/letter/l/eb9ed0/32.png) [@laalaa99stl](https://forum.mothur.org/u/laalaa99stl)\
**Post date:** [April 1, 2010, 2:58pm UTC](https://forum.mothur.org/t/chimeric-sequence-vs-recombination-breakpoint/184/2 "2010-04-01T14:58:56Z")

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undersampling the population\>\>\>rate of chimera generation\>\>recombination rates

Robin