Locus 8717

Sequence ID 3L_DroMel_CAF1
Location 22,642,617 – 22,642,723
Length 106
Max. P 0.594774
window14282

overview

Window 2

Location 22,642,617 – 22,642,723
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 82.45
Mean single sequence MFE -43.74
Consensus MFE -27.24
Energy contribution -28.96
Covariance contribution 1.72
Combinations/Pair 1.17
Mean z-score -1.84
Structure conservation index 0.62
SVM decision value 0.12
SVM RNA-class probability 0.594774
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22642617 106 + 23771897
UGGAGGAGGUCCCGGUCCACAAAAGCAGCAGGCGGACGAGGGAGCCGUGAUUCAGGAUGGACUUAACACGAAGGGGCCAUGUGGCCCGGCAAAAGUUGUCCUCGAG
..(((((.(((((.((((.(...........).))))..))))((((((.((.((......)).)))))....(((((....))))))))......).)))))... ( -40.00)
>DroSec_CAF1 11508 106 + 1
UGGAGGAGGUCCCGGUCCACGCAAGCAGCAGGCGGACGAGGGAGCCGGGCUGCAGGAUGGACUUAACACUCAGGGGCCAUGUGGCCCGGCAAAACUUGUCCUCGAG
..(((((.(((((.((((.(((.....)).)..))))..))))(((((((..((...(((.(((........))).)))))..)))))))......).)))))... ( -47.70)
>DroSim_CAF1 9909 106 + 1
UGGAGGAGGUCCCGGUCCACGCAAGCAGCAGGCGGACGAGGGAGCCGGGCUGCAGGAUGGACUUAACACUCAGGGGCCAUGUGGCCCGGCAAAACUUGUCCUCGAG
..(((((.(((((.((((.(((.....)).)..))))..))))(((((((..((...(((.(((........))).)))))..)))))))......).)))))... ( -47.70)
>DroEre_CAF1 8762 91 + 1
UGGAGGAGAAC--------------CAGGAGUCGGCCCAGGAAGCCGUGCUGCGGGAUGGUCCCAACACUCAGGGGCCAUGUGGCGCG-CCAAAGUUGUCCUCGAG
..(((((.(((--------------........(((.......)))((((.((.(.((((((((........)))))))).).)))))-)....))).)))))... ( -40.40)
>DroYak_CAF1 20103 106 + 1
UGGUGGAGAACCUGGUCGACGAAAUCAGGAGUCGGACCAGGAAGCCUGGCUGCAGGAUGGUCUUAACACUCAGGGGCCAUGUGGCGCGGCCAAAGUUGUCCUCAAG
(((.(((.((((((((((((..........))).))))))).....(((((((.(.((((((((........)))))))).)...)))))))...)).)))))).. ( -42.90)
>consensus
UGGAGGAGGUCCCGGUCCACGAAAGCAGCAGGCGGACGAGGGAGCCGGGCUGCAGGAUGGACUUAACACUCAGGGGCCAUGUGGCCCGGCAAAAGUUGUCCUCGAG
..(((((.(.((..((((...............))))..))..(((((((((((...(((.(((........))).))))))))))))))......).)))))... (-27.24 = -28.96 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:00 2006