Locus 1089

Sequence ID X_DroMel_CAF1
Location 3,207,451 – 3,207,563
Length 112
Max. P 0.633824
window1763

overview

Window 3

Location 3,207,451 – 3,207,563
Length 112
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.45
Mean single sequence MFE -35.88
Consensus MFE -23.44
Energy contribution -23.82
Covariance contribution 0.37
Combinations/Pair 1.13
Mean z-score -1.78
Structure conservation index 0.65
SVM decision value 0.21
SVM RNA-class probability 0.633824
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3207451 112 - 22224390
UCCCGCAUAGCUGGCUAAAAAGGAUUCCUAAAAC---GAUGGGCAUGCGAUAUGCGAUGAAUGGACCAACAGC-----GCAGGAGUCUAGGGGCGCUACAGUGUGGCGCAUAGAUAUAGU
((((((((.(((.((.....(((...))).....---).).))))))))...((((.....((......)).)-----))))))(((((...(((((((...))))))).)))))..... ( -32.60)
>DroSec_CAF1 16765 103 - 1
UCCCGCAUUGCUGGC--AAAAGGGUCCCUAAAAC---GAUGGGCAUG-------CGAUGAAUGGACCAACAUC-----GCAGGAGUCUAGGGGCGCUACAGUGUGGGGCAUGGAUAUAGU
((((((((((.((((--......(((((((....---(((...(.((-------(((((..........))))-----))).).))))))))))))))))))))))))............ ( -38.20)
>DroEre_CAF1 18591 106 - 1
UCCCGCAUUGAUGGU--AAAAGGGUCCCUAAAACGACGAUGGGCAUC-------CAAUGAAUGGACCAACAUC-----GCAGCGGUCUAGGGGUGCCACAGUGUGGGGCACAGAUAUAGU
((((((((((.((((--(......((((((...((.(((((....((-------((.....))))....))))-----)...))...)))))))))))))))))))))............ ( -39.40)
>DroYak_CAF1 21355 108 - 1
UCCCGCAUUGAUGGA--AAAAGGGUCCCUAAAAC---GAUGGGCAUG-------CAAUGAAUGGACCAACAUCGUAUCGCAGGAGUCUAGGGGCGCUACAGUGUGGGGCACAGAUAUAGG
((((((((((.(...--.).((.(((((((..((---(((((((((.-------......)))..))..)))))).((....))...))))))).)).))))))))))............ ( -33.30)
>consensus
UCCCGCAUUGAUGGC__AAAAGGGUCCCUAAAAC___GAUGGGCAUG_______CAAUGAAUGGACCAACAUC_____GCAGGAGUCUAGGGGCGCUACAGUGUGGGGCACAGAUAUAGU
((((((((((.((((........(((((((.......(.(((.(((..............)))..))).)........((....)).)))))))))))))))))))))............ (-23.44 = -23.82 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:15 2006