Locus 4908

Sequence ID 3R_DroMel_CAF1
Location 12,888,705 – 12,888,799
Length 94
Max. P 0.903276
window8033

overview

Window 3

Location 12,888,705 – 12,888,799
Length 94
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 79.28
Mean single sequence MFE -38.10
Consensus MFE -27.30
Energy contribution -28.68
Covariance contribution 1.38
Combinations/Pair 1.17
Mean z-score -1.92
Structure conservation index 0.72
SVM decision value 1.03
SVM RNA-class probability 0.903276
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12888705 94 + 27905053
AAUCAGGUUUAACUGGUACAUUGGGGCUUGGGGACCGA---CG------UUGGCGAAUCGCCACGAUCUGGGAACAUUUGAGGCGAUUCGAGUCGCCAGGCGC
.(((((......)))))........((((((.(((...---..------....(((((((((.(((..((....)).))).))))))))).))).)))))).. ( -37.50)
>DroSec_CAF1 6429 97 + 1
AAUCAGGUUUAACUGGUACAUUGGGGCUUGGGGACCGGCGGCG------AUGGCGAAUCGCCGCGAUCUGGGUACAUUUGAGGCGAUUCGAGUCGCCAGGCGC
.(((((......)))))........(((.(....).)))((((------((..(((((((((.(((..((....)).))).))))))))).))))))...... ( -41.00)
>DroSim_CAF1 5454 97 + 1
AAUCAGGUUUAACUGGUACAUUGGGGCUUGGGGACCGGCGGCG------AUGGCGAAUCGCCGCGAUCUGGGUACAUUUGAGGCGAUUCGAGUCGCCAGGCGC
.(((((......)))))........(((.(....).)))((((------((..(((((((((.(((..((....)).))).))))))))).))))))...... ( -41.00)
>DroYak_CAF1 6508 103 + 1
AAUCAGGUUUAACUGGUACAUUGGAGCUUGGGGACUGGCGGCGGUGGCGGUGGCGAAUCGCCACGAUCUGGGUACAUUGGAGGCGAUUCGAGUCGCCAGGCGC
.(((((......)))))........((((((.((((.((.((....)).))..(((((((((.((((........))))..))))))))))))).)))))).. ( -43.40)
>DroAna_CAF1 4062 76 + 1
GAUCAGGUUUAACUGGUACAUUUG------GGGCCC--CGGUG------GGGCCGGAUCGAAACGAU----------UCGAGUCGAUUUGAA---CCGGGCGC
.(((((......))))).......------.(((((--(...)------)))))((.(((((.((((----------....)))).))))).---))...... ( -27.60)
>consensus
AAUCAGGUUUAACUGGUACAUUGGGGCUUGGGGACCGGCGGCG______AUGGCGAAUCGCCACGAUCUGGGUACAUUUGAGGCGAUUCGAGUCGCCAGGCGC
.(((((......)))))........((((((.(((((....))..........(((((((((.(((..((....)).))).))))))))).))).)))))).. (-27.30 = -28.68 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:45 2006