Locus 1193

Sequence ID 2R_DroMel_CAF1
Location 4,727,227 – 4,727,335
Length 108
Max. P 0.500000
window2082

overview

Window 2

Location 4,727,227 – 4,727,335
Length 108
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 81.19
Mean single sequence MFE -26.16
Consensus MFE -16.58
Energy contribution -16.86
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.64
Structure conservation index 0.63
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4727227 108 - 20766785
-CCGAACUGAGGAGUUGGG--GAUUUCCAGUUGGUCAGGCGCUGGCGCAGUGAAAUUUUAAUUAAGCUGCAACUUAAAUUAAUAUAAGUUUUAUUUACUGACCUCCAAUAU
-...(((((.((((((...--)))))))))))((((((((....))(((((..(((....)))..)))))((((((........)))))).......))))))........ ( -27.60)
>DroSec_CAF1 7319 103 - 1
-----ACUCAGAAGG-GGG--GAUUUCCAUUUGGUUGGGCGGUGGAGCAGUGAAAUUUUAAUUAAGCUGCAACUUAAAUUAAUAUAAGUUUUAUUUACUGACCUCCAAUAU
-----........((-(((--....((((......))))((((((((((((..(((....)))..)))))((((((........))))))...))))))).)))))..... ( -26.90)
>DroSim_CAF1 9105 103 - 1
-----ACUCAGGAGA-GGG--GACUUCCAGUUGGUCGGGCGGUGGAGCAGUGAAAUUUUAAUUAAGCUGCAACUUAAAUUAAUAUAAGUUUUAUUUACUGACCCCCAAUAU
-----.....(((.(-(..--..))))).(((((..(((((((((((((((..(((....)))..)))))((((((........))))))...))))))).)))))))).. ( -31.70)
>DroEre_CAF1 7058 106 - 1
-CUCAACUGCAG----GGCUCCACUUCCAGUUGGUCAGUUUGGGGCGCACUGCAAUUCCAAUUAAACUGCAACUUAAAUUAAUACAAGUUUUAUUUACUGACCUCCAAUAU
-...(((((.((----(......))).)))))((((((((((((((.....))...)))))..(((((..................))))).....)))))))........ ( -20.57)
>DroYak_CAF1 7498 105 - 1
GCUCGACUGAAG----GGG--CAUUUCCAGUUGGUCAGGUUCUGACGCAGUGCAAUUUUAAUAAAGCUGCAACUUAAAUUAAUUUAGGCUUUGUUUACUGACCUCCAAUAU
((((........----)))--).......(..((((((.....((((((((..............)))))..((((((....))))))....)))..))))))..)..... ( -24.04)
>consensus
_C___ACUGAGGAG__GGG__GAUUUCCAGUUGGUCAGGCGGUGGCGCAGUGAAAUUUUAAUUAAGCUGCAACUUAAAUUAAUAUAAGUUUUAUUUACUGACCUCCAAUAU
................(((......)))....((((((........(((((..(((....)))..)))))((((((........)))))).......))))))........ (-16.58 = -16.86 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:42 2006