Locus 3846

Sequence ID 3R_DroMel_CAF1
Location 10,486,132 – 10,486,246
Length 114
Max. P 0.827766
window6161

overview

Window 1

Location 10,486,132 – 10,486,246
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 76.93
Mean single sequence MFE -45.96
Consensus MFE -29.61
Energy contribution -30.58
Covariance contribution 0.98
Combinations/Pair 1.30
Mean z-score -1.57
Structure conservation index 0.64
SVM decision value 0.70
SVM RNA-class probability 0.827766
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10486132 114 + 27905053
CAGCUGGACCAGCGGCAGCAGCAGCGGCCGCAGCUUCCCCGCCCUCAGCGGUGGCGCCCACUCCCAGUUCAGCUUGCGAGCUGCAGGCUAGACAACAGCCUCCCCAGCAGCCAC
.((((((((..(((((.((....)).))))).((..((((((.....)))).)).)).........))))))))...(.((((((((((.......))))).....)))))).. ( -47.10)
>DroVir_CAF1 28110 102 + 1
C---CAUAAC---CGCAGCAGCCGCCGCGGCGGCAUCACCCCCCUCAGCUGCCGCACCCACAGCCAGUGCAGUUUGCGAGUUGCAGGCUCGUCAACACCCC---CUACAAC---
.---......---.(((((.(((((....))))).............))))).((((.........)))).(((.((((((.....)))))).))).....---.......--- ( -30.54)
>DroGri_CAF1 36024 103 + 1
C---CACAAC---UGCAGCAGCAGCGGCUGCAGCUUCGCCUCCAUCGGCUGCUGCGCCAACGGCAAGCGCUGUUUGUGAGCUGCAGGCACGUCAGCAGCCA---CAACAGCC--
.---......---.((.((((((((.(.((.((......)).)).).))))))))(((...)))..))((((((.(((.(((((.((....)).)))))))---))))))).-- ( -45.80)
>DroSec_CAF1 32277 114 + 1
CAGCUGGACCAGCGGCGGCAGCAGCGGCCGCAGCUUCCCCGCCCUCAGCGGUGGCGCCCACACCCAGCUCAGCUUGCGAGCUGCAGGCUAGGCAACAGCCGCCCCAGCAGCCAC
..(((((....(((((((((((.((....)).))).((((((.....)))).)).)))........((..(((((((.....)))))))..))....))))).)))))...... ( -51.60)
>DroSim_CAF1 32989 114 + 1
CAGCUGGACCCGCGGCGGCAGCAGCGGCCGCAGCUUCCCCACCCUCAGCGGUGGCGCCCACGCCCAGCUCAGCUUGCGAGCUGCAGGCUAGGCAACAGCCGCCCCAGCAGCCAC
..(((((....(((((.((....)).)))))................(((((((((....))))..((..(((((((.....)))))))..))....))))).)))))...... ( -53.90)
>DroYak_CAF1 32602 114 + 1
CAGCUGGACCAGCAGCAGCUGCAGCGGCCGCAGCUUCCCCACCCUCGGCGGUGGCGCCAACGCCCAGCUCCGCUUGCGAGCUGCAGGCCAGACAACAGCCGCCCCAGCAGCCAC
..(((((....((.(((((((((((((....((((.((((......)).)).((((....)))).)))))))).))).)))))).(((.........))))).)))))...... ( -46.80)
>consensus
CAGCUGGACCAGCGGCAGCAGCAGCGGCCGCAGCUUCCCCACCCUCAGCGGUGGCGCCCACGCCCAGCUCAGCUUGCGAGCUGCAGGCUAGACAACAGCCGCCCCAGCAGCCAC
..(((((.......(((((.(((((.(((((.(((...........))).)))))((.........))...)).)))..))))).((((.(....)))))...)))))...... (-29.61 = -30.58 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:30 2006