Locus 3936

Sequence ID 3L_DroMel_CAF1
Location 11,415,908 – 11,416,017
Length 109
Max. P 0.743099
window6128

overview

Window 8

Location 11,415,908 – 11,416,017
Length 109
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 92.62
Mean single sequence MFE -30.50
Consensus MFE -26.83
Energy contribution -26.47
Covariance contribution -0.36
Combinations/Pair 1.09
Mean z-score -1.31
Structure conservation index 0.88
SVM decision value 0.45
SVM RNA-class probability 0.743099
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11415908 109 + 23771897
UGCCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUCCAAAUAGGCCAGUGGUUAAA------AGGGCUCUAGAAAUGGGAACCCAACUCAUUACGCAGGCAG
((((.((((((......(((((.(((.......))))))))..(((((((...((((((..(......)------..))).)))......)))))))..))))....)).)))). ( -36.50)
>DroSec_CAF1 135788 104 + 1
UGUCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUCCAAAUAGGCCAGUGGUUAAA------AGGGCUCUGAAAAUGGGAA-----CUCAUUACGCAGGCAG
....(.(((.(......(((((.(((.......))))))))..(((((((...((((((..(......)------..))).)))......))))-----)))....).))).).. ( -28.40)
>DroSim_CAF1 147277 104 + 1
UGCCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUCCAAAUAGGCCAGUGGUUAAA------AGGGCUCUGCAAAUGGGAA-----CUCAUUACGCAGGCAG
((((.((..........(((((.(((.......))))))))..(((((((...((((((..(......)------..))).)))......))))-----))).....)).)))). ( -30.40)
>DroEre_CAF1 143270 110 + 1
UGCCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUUCAAAUAGGCCAGUGGUUGAAGGUUGGAGGGCUCUGGAAAUGGGAA-----CUCAUUACGCAGGCAG
(((((((.((......)).))).....((((((((((((.....(....)......)))..)))))))))((..(((..(((.......)))..-----)))...))...)))). ( -30.00)
>DroYak_CAF1 134197 103 + 1
UGCCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUUCAAAUAGGCCAGUGGUUGAA-------GGGCUCUGCAAAUGGUAA-----CUCAUUACGCAGGCAG
.((((((.((......)).))).....((((((((((((.....(....)......)))..))))))))-------)))).((((...((((((-----....)))).)).)))) ( -27.20)
>consensus
UGCCGGCUGGGAUUAACUUGCCAUGAAUUUCAAUUAGGCAAAAGGGUUCCAAAUAGGCCAGUGGUUAAA______AGGGCUCUGCAAAUGGGAA_____CUCAUUACGCAGGCAG
((((.(((((((((...(((((.(((.......))))))))...)))))))..((((((..................))).)))..((((((.......))))))..)).)))). (-26.83 = -26.47 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:25 2006