Locus 5730

Sequence ID 3R_DroMel_CAF1
Location 14,946,483 – 14,946,595
Length 112
Max. P 0.603458
window9377

overview

Window 7

Location 14,946,483 – 14,946,595
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.53
Mean single sequence MFE -26.28
Consensus MFE -21.55
Energy contribution -22.30
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.82
SVM decision value 0.14
SVM RNA-class probability 0.603458
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14946483 112 + 27905053
AUCCAUUAGUACGUGCGUAUACAUAACGAUAAAUGUAUAAAUAAACACCAGAAGUUGGGGG-GCCACAGCCACGCAUAAAUCUCACGUGCAAAUGUGGAACAAAGCUGCCGAA-------
.(((((..(((((((..(((((((........)))))))..........(((...((.(.(-((....))).).))....))))))))))....)))))..............------- ( -26.10)
>DroSec_CAF1 82229 112 + 1
AUCCAUUAGUACGUGCGUAUACAUAACGAUAAAUGUAUAAAUAAACACCAGAAGUUGGGGG-GCCACAGCCACGCAUAAAUCUCACGUGCAAAUGUGGAACAAAGCUCCCGAA-------
.(((((..(((((((..(((((((........)))))))..........(((...((.(.(-((....))).).))....))))))))))....)))))..............------- ( -26.10)
>DroSim_CAF1 75119 113 + 1
AUCCAUUAGUACGUGCGUAUACAUAACGAUAAAUGUAUAAAUAAACACCAGAAGUCGGGGGAGCCACUGCCACGCAUAAAUCUCACGUGCAAAUGUGGAACAAAGCUCCCGAA-------
....(((.((((((.(((.......)))....)))))).))).....((.......))((((((.....((((((((.........))))....))))......))))))...------- ( -25.60)
>DroYak_CAF1 79229 119 + 1
AUCCAUUAAUACGUGCGUAUACAUAACGAUAAAUGUAUAAAUAAACACCAGAAGUUGGGGG-GCCACAGCCACGCAUAAAUCUCACUUGCAAAUGUGGAACACAGCUCCCUAAUGCCCCA
..............((.(((((((........)))))))..............((((((((-((.....(((((((...........)))....))))......)))))))))))).... ( -27.30)
>consensus
AUCCAUUAGUACGUGCGUAUACAUAACGAUAAAUGUAUAAAUAAACACCAGAAGUUGGGGG_GCCACAGCCACGCAUAAAUCUCACGUGCAAAUGUGGAACAAAGCUCCCGAA_______
.(((((..(((((((.((((((((........)))))))..............((((((....)).))))...........).)))))))....)))))..................... (-21.55 = -22.30 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:04 2006