Locus 5709

Sequence ID 2L_DroMel_CAF1
Location 16,239,489 – 16,239,603
Length 114
Max. P 0.910074
window9046

overview

Window 6

Location 16,239,489 – 16,239,603
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.76
Mean single sequence MFE -21.90
Consensus MFE -16.45
Energy contribution -19.20
Covariance contribution 2.75
Combinations/Pair 1.13
Mean z-score -2.14
Structure conservation index 0.75
SVM decision value 1.07
SVM RNA-class probability 0.910074
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16239489 114 + 22407834
ACUAUGAAGUCACUG------UUUUUGAUCAGGAUAGCCAUAAAUUUAAGGUUAUGAAAAAUUUGAUCAAAGAACUUAAAGGACUGAUCGAACAUUUCAGUGAUACAAAAAAUAUUACGA
........(((((((------..(((((((((.((((((..........))))))...................((....)).))))))))).....)))))))................ ( -23.10)
>DroSec_CAF1 1560 114 + 1
ACUAUGAAGUCACUA------UUGUUGAUCAGGAUAACCAUAAAUUUAAGGUUAUGGAAAAUUUGAUCAAAGAUCUUAAAGGAUUGAUCAAUCAAUUCAGUGAUAAAAAAAAUAUUACGA
........((((((.------...(((((((((....((((((........))))))....)))))))))..........(((((((....)))))))))))))................ ( -25.50)
>DroSim_CAF1 1622 120 + 1
ACUAUGAAGUCACUACUCAUGUUGUUAAUCAGGAUAACCAUAAAUUUAAGGUUAUGGAAAAUUUGAUCAAAGAACUUAAAGGAUUGAUCAAUCAAUUCAGUGACACAAAAAAUAUUACGA
........((((((......(((.((.((((((....((((((........))))))....))))))..)).))).....(((((((....)))))))))))))................ ( -23.80)
>DroEre_CAF1 3564 111 + 1
ACCAUGAAGUUACAA------AUC---AUAAUGUUAGCCAUAAAUUUAAGAUUAUGGAAAAUUUGAUCAAGGAACUUAAAGGACUGAUUAAUCAAUUAAGUGGCAAAGAAAAUAUUACGA
........(((((..------.((---(((((.((((........)))).))))))).....(((((((.(...(.....)..))))))))........)))))................ ( -15.20)
>consensus
ACUAUGAAGUCACUA______UUGUUGAUCAGGAUAACCAUAAAUUUAAGGUUAUGGAAAAUUUGAUCAAAGAACUUAAAGGACUGAUCAAUCAAUUCAGUGACAAAAAAAAUAUUACGA
........((((((.......((((((((((((....((((((........))))))....)))))))))))).......((((((......))))))))))))................ (-16.45 = -19.20 +   2.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:45 2006