Locus 3439

Sequence ID 2L_DroMel_CAF1
Location 9,995,872 – 9,995,976
Length 104
Max. P 0.668196
window5445

overview

Window 5

Location 9,995,872 – 9,995,976
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.18
Mean single sequence MFE -29.02
Consensus MFE -11.17
Energy contribution -14.34
Covariance contribution 3.17
Combinations/Pair 1.21
Mean z-score -1.88
Structure conservation index 0.38
SVM decision value 0.28
SVM RNA-class probability 0.668196
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9995872 104 + 22407834
UUACGUUGAAUAGAUAGUGAUUAAUAUCAAUCGUUGGUCAAUGA-AUAGCUUGAAUACUAUCAUAAUCCAAAUAACCAUGCGCUUGGAAGAUAC-------------AGUCCAUGUG--G
............(((((((.((((......(((((....)))))-.....)))).)))))))..................(((.((((......-------------..)))).)))--. ( -17.50)
>DroSec_CAF1 27110 116 + 1
UUACGUUGAUUAGAUAGUGAUUAAUAUCAAGCUUUGAUCAAUGG-AUAGUUUGGAUACUAUCAUAAUCCAAAUAACCAUGCGUUUGGAAGAUACCGUUCGGUG-GUCAGUCCAUGUG--G
.(((((((((((((...((((....))))...))))))))))((-((.((((((((.........)))))))).(((((.((..(((......)))..)))))-))..))))..)))--. ( -32.70)
>DroSim_CAF1 29937 117 + 1
UUACGUUGAUUAGAUAGUGAUUAAUAUCAAGCUUUGAUCAAUGG-AUAGUUUGGAUACUAUCAUAAUCCAAAUAACCAUGCGUUUGGAAGAUACCGUUCGGUGGGUCAGUCCAUGUG--G
.(((((((((((((...((((....))))...))))))))))((-((.((((((((.........))))))))..((((.((..(((......)))..))))))....))))..)))--. ( -32.40)
>DroEre_CAF1 27766 106 + 1
CUA--------------UAAUUAAUAUCUAACGUUGAUCAAGGGAAAAGUUUGGAUAUUAUCAUUAUCCAAAUCACCAUGCAUAUGGAAGACCCUGUUCGGUGGGUCAGUCCAUAUGUAG
...--------------........................((.....(((((((((.......)))))))))..)).((((((((((.(((((........)))))..)))))))))). ( -33.20)
>DroYak_CAF1 27951 118 + 1
CUACGUUGAUCGAGUUGCAAUCAAUAUCUAACGUUGAUCAAAGGAAUAGUUUGGAUAGUAUCACUAUCCAAGUCAACAUGCAUUUGGAAGAUCCUGUUUGGUGGGCCAGUCCAUGUG--A
...(.((((((((((((...........)))).)))))))).).....((((((((((.....))))))))).).(((((...((((.....((.....))....))))..))))).--. ( -29.30)
>consensus
UUACGUUGAUUAGAUAGUGAUUAAUAUCAAACGUUGAUCAAUGG_AUAGUUUGGAUACUAUCAUAAUCCAAAUAACCAUGCGUUUGGAAGAUACCGUUCGGUGGGUCAGUCCAUGUG__G
...((((((((((....((((....))))....))))))))))........(((((..........(((((((........))))))).....((....)).......)))))....... (-11.17 = -14.34 +   3.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:34 2006