Locus 5480

Sequence ID 3R_DroMel_CAF1
Location 14,455,987 – 14,456,107
Length 120
Max. P 0.613170
window8941

overview

Window 1

Location 14,455,987 – 14,456,107
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.72
Mean single sequence MFE -21.78
Consensus MFE -14.85
Energy contribution -15.85
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.68
SVM decision value 0.16
SVM RNA-class probability 0.613170
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14455987 120 + 27905053
GCGCUGCCCCGGGGUCACCAAAAAAAACUGAAGCUCUCCCCCCAUCAACCGAAAAAAAAAAUGGAAACAAAAAUAAAACCGGGCAUAAACAAAUCCUCGACCGGUUUCAGUCGCCUCUCU
((((((....((((.........................))))...(((((..........((....))..........((((.((......)).))))..))))).))).)))...... ( -22.21)
>DroSec_CAF1 13408 110 + 1
GCGCUGCCCCGGGGUCACCAA---AAACUGAAGC----CCCCCAACAACCGAAA---AAAAUGGAAACAAAAAUAAAACCGGGCAUAAACAAAUCCUCGACCGGUUUCAGUCGCCUCUCU
((((((....(((((...((.---....))..))----))).....(((((...---....((....))..........((((.((......)).))))..))))).))).)))...... ( -24.30)
>DroSim_CAF1 13987 110 + 1
GCGCUGCCCCGGGGUCACCAA---AAACUGAAGC----CCCCCAUCAACCGAAA---AAAAUGGAAACAAAAAUAAAACCGGGCAUAAACAAAUCCUCGGCCGGUUUCAGUCGCCUCUCU
((((((....(((((...((.---....))..))----))).....(((((...---....((....)).........(((((.((......)).))))).))))).))).)))...... ( -27.10)
>DroYak_CAF1 15476 98 + 1
--GCUGCCCCGGGGUCACCAAA--AAACUGAAGC-----CCCCAUCAACCAAA------------AACAAAAAUAAAACCG-ACAUAAACAAAUCCUCGACCGGAUUCAGUCGCCUCUCU
--((((....(((((...((..--....))..))-----)))...........------------................-.........(((((......)))))))))......... ( -13.50)
>consensus
GCGCUGCCCCGGGGUCACCAA___AAACUGAAGC____CCCCCAUCAACCGAAA___AAAAUGGAAACAAAAAUAAAACCGGGCAUAAACAAAUCCUCGACCGGUUUCAGUCGCCUCUCU
((((((....((((.........................))))................................(((((((.(..............).)))))))))).)))...... (-14.85 = -15.85 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:08 2006