Locus 5038

Sequence ID X_DroMel_CAF1
Location 13,186,356 – 13,186,470
Length 114
Max. P 0.823157
window8199

overview

Window 9

Location 13,186,356 – 13,186,470
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.05
Mean single sequence MFE -27.87
Consensus MFE -8.61
Energy contribution -11.45
Covariance contribution 2.84
Combinations/Pair 1.09
Mean z-score -2.11
Structure conservation index 0.31
SVM decision value 0.69
SVM RNA-class probability 0.823157
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13186356 114 - 22224390
GGCAUAAAGUAGGGAAUAUAAACAAUUGGUGGGCUGUGAA------GCUGUAGUUGAAGCUGAAGCCCACCUAGCUAGCUACUAGCUACACAUUUCAUAAAAAUCUCCUUUCUGAUAUAA
.......((.(((((............((((((((....(------(((........))))..))))))))(((((((...))))))).................))))).))....... ( -34.50)
>DroSec_CAF1 15993 116 - 1
GGCAUAAAGUGUGGAACAUAAACAAUUGGUGGGCUGAGCAGCUGUAGCUGUAGCUGAAUCUGAAGCCCACCUA----GCUACUGGCUAUACAUUUCAUAAAAAUCUCCUUUCUGAUAUAA
((.......(((((((...........((((((((...(((...((((....))))...))).))))))))((----((.....))))....))))))).......))............ ( -34.04)
>DroSim_CAF1 17376 116 - 1
GGCAUAAAGUGUGGAAUAUAAACAAUUGGUGGGCUGAGCAGCUGUAGCUGUAGCUGAAUCUGAAGCCCACCUA----GCUACUGGCUACACAUUUCAUAAAAAUCUCCUUUCUGAUAUAA
((.......((((((((..........((((((((...(((...((((....))))...))).))))))))((----((.....))))...)))))))).......))............ ( -35.24)
>DroEre_CAF1 20100 94 - 1
GCCAUAAAGUAGGGAAUAUAAACAAUUGGAGGGCCCAA--G------CUGAAGCCAAG--U-----CCACCUA-----------CCUACACAUUUCAUAAAAAUCUCCUUUCUGAUAUAA
........(((((..............((.((((....--(------(....))...)--)-----)).))..-----------))))).............(((........))).... ( -13.99)
>DroYak_CAF1 22460 102 - 1
GCCAUAAAGUAGGGAAUAUAAACAAUUGGAGGGCCCAG--GAUGAAGCUGAAGCUGAAGCU-----AAAGCUA-----------CCUACACAUUUCAUAAAAAUCUCCUUUCUGAUAUGA
........(((((.........((.((((.....))))--..)).((((..(((....)))-----..)))).-----------))))).(((.(((.(((.......))).))).))). ( -21.60)
>consensus
GGCAUAAAGUAGGGAAUAUAAACAAUUGGUGGGCUGAG_AG_UG_AGCUGUAGCUGAAGCUGAAGCCCACCUA____GCUACU_GCUACACAUUUCAUAAAAAUCUCCUUUCUGAUAUAA
.......((.(((((............((((((((..........(((....)))........))))))))....................((((.....)))).))))).))....... ( -8.61 = -11.45 +   2.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:41 2006