Locus 4783

Sequence ID 2R_DroMel_CAF1
Location 15,733,233 – 15,733,325
Length 92
Max. P 0.906789
window7685

overview

Window 5

Location 15,733,233 – 15,733,325
Length 92
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 78.00
Mean single sequence MFE -24.12
Consensus MFE -10.70
Energy contribution -13.02
Covariance contribution 2.32
Combinations/Pair 1.13
Mean z-score -2.25
Structure conservation index 0.44
SVM decision value 1.05
SVM RNA-class probability 0.906789
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15733233 92 + 20766785
UCAGGAUUGGUUGGUUGGCAUAAUAGUACAUA----UGUAUGUACGUAUGUAUGGAGUAUAUUCAGAUAUAUCUUCUGCU--CAGCCACCGUGAGCCG
...((..((((.((((((((.....(((((((----(((....))))))))))(((((((((....))))).))))))).--)))))))))....)). ( -31.60)
>DroSec_CAF1 609503 74 + 1
UCAGGAUUGGUUGGUUGGCAUAAUAGUACAUA----UGUAUGU---------------AUAUUCAGAUAUAUC---UGCC--CAGCCACCGUGAGCCG
...((..((((.((((((.......((((((.----...))))---------------))...((((....))---)).)--)))))))))....)). ( -21.70)
>DroSim_CAF1 516921 74 + 1
UCAGGAUUGGUUGGUUGGCAUAAUAGUACAUA----UGUAUGU---------------AUAUUCAGAUAUAUC---UGCC--CAGCCACCGUGAGCCG
...((..((((.((((((.......((((((.----...))))---------------))...((((....))---)).)--)))))))))....)). ( -21.70)
>DroEre_CAF1 513592 80 + 1
UCAGGAUUG----CUUGGCAUAAUAGUACAUACACACGUAUGUACGAGUA---------UAUUCAGAUGUAUC---UGCC--CAGCCACCGUGAGCCG
(((((...(----((.((((.....((((((((....))))))))..(((---------(((....)))))).---))))--.)))..)).))).... ( -24.10)
>DroYak_CAF1 532542 83 + 1
-CGGGAUUG----GUUCGCAUAAUAGUACAUA----CGUAUGUACGACUAUAUG---UGUAUUCAGAUGUAUC---UGCCACCAGCCACCGUAAGCCG
-((((..((----((..(((.....((((((.----...))))))((.(((((.---((....)).)))))))---))).))))..).)))....... ( -21.50)
>consensus
UCAGGAUUGGUUGGUUGGCAUAAUAGUACAUA____UGUAUGUACG__U_________AUAUUCAGAUAUAUC___UGCC__CAGCCACCGUGAGCCG
...((..((((((...((((.....(((((((......))))))).............((((......))))....))))..))))))))........ (-10.70 = -13.02 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:06 2006