Locus 5248

Sequence ID 3R_DroMel_CAF1
Location 13,696,559 – 13,696,667
Length 108
Max. P 0.984375
window8570

overview

Window 0

Location 13,696,559 – 13,696,667
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.73
Mean single sequence MFE -30.69
Consensus MFE -17.05
Energy contribution -17.09
Covariance contribution 0.04
Combinations/Pair 1.18
Mean z-score -2.88
Structure conservation index 0.56
SVM decision value 1.97
SVM RNA-class probability 0.984375
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13696559 108 + 27905053
AUGUAUUAGCCCUUAAAGUCAUAAGUUAAAGUCUGAUUGCUCUGCGGCAUGGAACAUU-----AUAAAGUGUAUCGAGUGUCGUG-------GUGCAAUCGGAUUUUAAAUCCAUAGCCU
........((.((((......))))(((((((((((((((.(..((((((.(((((((-----....))))).))..))))))..-------).))))))))))))))).......)).. ( -36.90)
>DroSec_CAF1 6380 108 + 1
AUGUAUUAGCCCUUAAAGUCAAAAGUUAAAGUCUGAUUGCUCUGCGGCAUGGAACACU-----AAAACUUGUAUUGAGUGUCGUG-------GUGCAAUCGGUUUUUAAACCCAUAGCCU
.........................((((((.((((((((.(..((((((..((.((.-----.......)).))..))))))..-------).)))))))).))))))........... ( -28.70)
>DroSim_CAF1 6454 108 + 1
AUGUAUUAGCCCUUAAAAUCAUAAGUUAAAGUCUGAUUGCUCUGCGGCAUGGAACACU-----AAAACUUGUAUUGAGUGUCGUG-------GUGCAAUCGGUUUUUAAACCCAUAGCCU
........((.((((......))))((((((.((((((((.(..((((((..((.((.-----.......)).))..))))))..-------).)))))))).)))))).......)).. ( -29.60)
>DroEre_CAF1 6729 105 + 1
AUGUAUUACCCC-UUAAGUCAUAAGUUAAAGUUUGAUUGCUCUACGGCAUGGAACAUC-----AAUG--AGCAUUGAUUGCCGUG-------GUGCAAUCGGUUUUUAAACCCAUAGCCU
............-............((((((.((((((((.((((((((......(((-----(((.--...)))))))))))))-------).)))))))).))))))........... ( -29.80)
>DroYak_CAF1 7070 114 + 1
A----UUACCCCUUUAAGUCAUAUGUUAAAGUCUGAUUGCUUAACGGCAUAACACAUUGUACUAUAA--AGUGUUAAAUGUCGGAUUUUAAUUUGCAAUCGGAUUUUAAACCCAUAGCCU
.----................(((((((((((((((((((....(((((((((((.((((...))))--.))))))..)))))...........)))))))))))))))...)))).... ( -28.46)
>consensus
AUGUAUUAGCCCUUAAAGUCAUAAGUUAAAGUCUGAUUGCUCUGCGGCAUGGAACAUU_____AAAA__UGUAUUGAGUGUCGUG_______GUGCAAUCGGUUUUUAAACCCAUAGCCU
.........................((((((.((((((((..((((((((...........................)))))))).........)))))))).))))))........... (-17.05 = -17.09 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:14 2006