Locus 6677

Sequence ID 2L_DroMel_CAF1
Location 18,716,496 – 18,716,612
Length 116
Max. P 0.916662
window10653

overview

Window 3

Location 18,716,496 – 18,716,612
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.69
Mean single sequence MFE -25.66
Consensus MFE -21.26
Energy contribution -21.82
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.84
Structure conservation index 0.83
SVM decision value 1.11
SVM RNA-class probability 0.916662
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18716496 116 + 22407834
AAGCCAAUGCAAAAAAUGCCUCACAUAGAAAAGAUUAAUACGCGAGAUCAUUCACAAGAUCAUCGUAGGCAUUUAUUGGUUGAGUGGAUAUUUUACCAAUCCGAAGAAUAUCAAAA----
.((((((((.....((((((((.....))............((((((((........)))).)))).)))))))))))))).....((((((((.(......).))))))))....---- ( -26.00)
>DroSec_CAF1 9326 115 + 1
AAGCCAAUGCGAAAAAUGCCUCAGAUAGAAGAGAUUAAUACGCGAGAUCAUUCACAAGAUCAUCGCAGGCAUUUAUUGGUUGAGUAGAUAUUUUACCAAUCCGAAGAAUAUCGAA-----
.((((((((.....((((((((.....))............((((((((........)))).)))).)))))))))))))).....((((((((.(......).))))))))...----- ( -28.60)
>DroSim_CAF1 7705 115 + 1
AAGCCAAUGCGAAAAAUGCCUCAGAUAGAAGAGAUUAAUACGCGAGAUCAUUCACAAGAUCAUCGCAGGCAUUUAUUGGUUGACUAGAUAUUUUACCAAUCCGAAGAAUAUCGAA-----
.((((((((.....((((((((.....))............((((((((........)))).)))).)))))))))))))).....((((((((.(......).))))))))...----- ( -28.60)
>DroEre_CAF1 9354 118 + 1
AAGCCAAUGCGA--AAUGCUUCAGAUAGAAGAGAUUAAUACGCGAUAUCAUUCACCAGAUCAACGCAGGCAUUUAUUGGUUGAGUGAAUAUUUUGCCAAUGCGAGGAAUAUCGAAAAAUA
..(((..((((.--....((((.....)))).((((.....(.((......)).)..))))..)))))))...(((((((.((((....)))).)))))))(((......)))....... ( -22.70)
>DroYak_CAF1 9307 118 + 1
AAGCCAAUGCGA--AAUGCUUCAGAUAGAAGAGAUUAAUAUGCGAGAUCAUUCACGAAAUCAUCGUGGGCUUUUAUUGGUUGAGUGAAUAUUUUACCAAUGCGAAGAAUAUCAAAAAAGA
(((((..((((.--(((.((((.....))))..)))....))))........(((((.....)))))))))).(((((((.((((....)))).)))))))................... ( -22.40)
>consensus
AAGCCAAUGCGAAAAAUGCCUCAGAUAGAAGAGAUUAAUACGCGAGAUCAUUCACAAGAUCAUCGCAGGCAUUUAUUGGUUGAGUGGAUAUUUUACCAAUCCGAAGAAUAUCGAAA____
.((((((((.....((((((((.....))............((((((((........)))).)))).)))))))))))))).....((((((((.(......).))))))))........ (-21.26 = -21.82 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:09 2006