# \[Market strategy\] Direction of GC-pairs in small and big multiloops (symmetric)

**URL:** https://forum.eternagame.org/t/market-strategy-direction-of-gc-pairs-in-small-and-big-multiloops-symmetric/2005
**Category:** Strategy Market - Single State
**Created:** [August 24, 2011, 7:02pm UTC](https://forum.eternagame.org/t/market-strategy-direction-of-gc-pairs-in-small-and-big-multiloops-symmetric/2005 "2011-08-24T19:02:00Z")
**Posts on this page:** 3
**Page:** 1

<div class="post-metadata">

### Author: ![Eli\_Fisker](https://forum.eternagame.org/user_avatar/forum.eternagame.org/eli_fisker/32/4453_2.png) [@Eli\_Fisker](https://forum.eternagame.org/u/Eli_Fisker)
#### Post date: [August 24, 2011, 7:02pm UTC](https://forum.eternagame.org/t/market-strategy-direction-of-gc-pairs-in-small-and-big-multiloops-symmetric/2005/1 "2011-08-24T19:02:00Z")

</div>

I would like to ad a strategy about size of multiloop

Symmetic multiloop = multiloop with same numbers of nucleotides between the multiloop arms.

Here is my hypothesis: Tolerance for opposite direction of GC-pairs in a multiloop, sometimes have to do with size of multiloop. In smaller multiloops there is a greater tolerance for opposite turning GC-pairs than in big ones.

In multiloops with 4 nucleotides between the arms, if a GC-pair in the multiloop turn opposite in another possition than the neck, give -5 pr each extra

In multiloops with 3 nucleotides between the arms, if a GC-pair in the multiloop turn opposite in another possition than the neck, give -4 pr each extra

In multiloops with 2 nucleotides between the arms, if a GC-pair in the multiloop turn opposite in another possition than the neck, give -3 pr each extra

In multiloops with 1 nucleotides between the arms, if a GC-pair in the multiloop turn opposite in another possition than the neck, give -1 pr each extra

In multiloops with 0 nucleotides between the arms, if a GC-pair in the multiloop turn opposite in another possition than the neck, give 0 pr each

For theory behind this see the post [Our kid robot](http://getsatisfaction.com/eternagame/topics/our_kid_robot_round_3)

---

<div class="post-metadata">

### Author: ![JeehyungLee](https://forum.eternagame.org/letter_avatar_proxy/v4/letter/j/c77e96/32.png) [@JeehyungLee](https://forum.eternagame.org/u/JeehyungLee)
#### Post date: [August 25, 2011, 7:19pm UTC](https://forum.eternagame.org/t/market-strategy-direction-of-gc-pairs-in-small-and-big-multiloops-symmetric/2005/2 "2011-08-25T19:19:00Z")

</div>

Dear Eli,

Your strategy has been added to our implementation queue with task id 54. You can check the schedule of the implementation [here](https://spreadsheets.google.com/spreadsheet/ccc?authkey=CKjd8JAB&hl=en&key=tUnfBv6tknYbY28ufrQ-Y2Q&hl=en&authkey=CKjd8JAB#gid=1).

ETA of the implementation is 9/5/2011

Thanks for sharing your idea!

EteRNA team

---

<div class="post-metadata">

### Author: ![Eli\_Fisker](https://forum.eternagame.org/user_avatar/forum.eternagame.org/eli_fisker/32/4453_2.png) [@Eli\_Fisker](https://forum.eternagame.org/u/Eli_Fisker)
#### Post date: [December 19, 2013, 1:58pm UTC](https://forum.eternagame.org/t/market-strategy-direction-of-gc-pairs-in-small-and-big-multiloops-symmetric/2005/3 "2013-12-19T13:58:00Z")

</div>

There is an update to this strategy. We now have much more data on even bigger multiloops (symmetric or non-adjacent ones) and they do behave differently.

So if I would make the strategy different today.

For small multiloops with an average 1-4 single bases between stems:

Give + 1 if GC-pairs turn in usual orientation. Give -1 for each opposite turning GC-pair. (Having a few reverse is regularly legal. So is having non-GC-closings also, in particularly at neck closing.)

For bigger multiloops with an average of 5+ bases between the stems:

Don’t give any minus points for opposite turning basepairs. Give + 2 if there is some.

(The four way multiloop (0-0-0-0) needs its own strategy as it behaves a lot different. Similar adjacent multiloops behave differently to the symmetric ones.)

For more behind this idea, read here:  
[https://getsatisfaction.com/eternagam…](https://getsatisfaction.com/eternagame/topics/small_multiloops_behaves_different_from_bigger_ones#reply_13515046)
