Locus 1711

Sequence ID X_DroMel_CAF1
Location 4,776,454 – 4,776,562
Length 108
Max. P 0.757141
window2808

overview

Window 8

Location 4,776,454 – 4,776,562
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.15
Mean single sequence MFE -26.07
Consensus MFE -15.12
Energy contribution -17.40
Covariance contribution 2.28
Combinations/Pair 1.03
Mean z-score -2.09
Structure conservation index 0.58
SVM decision value 0.49
SVM RNA-class probability 0.757141
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4776454 108 + 22224390
GGUGGUGGAGA---------AACAUCGAUGCCAAACAUCGAUAUUUUCAAAAAAUCACAAACAUCGGUG---UUUUUCGAUGAAUCAUCGUUUAAAUUGUAGGUACAAAUUAAUUUUCCA
.....((((((---------(.((((((....((((((((((.(((............))).)))))))---))).)))))).........((((.((((....)))).))))))))))) ( -24.50)
>DroSec_CAF1 12984 104 + 1
GGUGGGAAAACAGCGAUGCCAACA-------------UCGAUAUUUUCGAAGAAUCACAAACAUCGGUG---UUUUUCGAGGAAUCAUCGUAUAAAUUGUAGGUACAAAUUAAUUUUGCA
(((((........(((((....))-------------)))...(((((((((((.(((........)))---))))))))))).)))))(((.((((((...........))))))))). ( -23.30)
>DroSim_CAF1 11285 120 + 1
GGUGGAGAAAAAUUGAUGCCAACAUCGAUGUCAAACAUCGAUAUUUUCGAAGAAUCACAAACAUCGGUUUGUUUUUUCGAGGAAUCAUCGUAUAAAUUGUAAGUACAAAUUAAUUUUGCA
.(..(((.......((((.....(((((((.....))))))).(((((((((((..((((((....)))))))))))))))))..))))...(((.((((....)))).))).)))..). ( -30.40)
>consensus
GGUGGAGAAAAA__GAUGCCAACAUCGAUG_CAAACAUCGAUAUUUUCGAAGAAUCACAAACAUCGGUG___UUUUUCGAGGAAUCAUCGUAUAAAUUGUAGGUACAAAUUAAUUUUGCA
(((((..................(((((((.....))))))).(((((((((((.(((........)))...))))))))))).)))))...(((.((((....)))).)))........ (-15.12 = -17.40 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:12 2006