Locus 3253

Sequence ID 3R_DroMel_CAF1
Location 8,687,808 – 8,687,913
Length 105
Max. P 0.834084
window5259

overview

Window 9

Location 8,687,808 – 8,687,913
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 91.05
Mean single sequence MFE -19.03
Consensus MFE -14.70
Energy contribution -14.90
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.77
SVM decision value 0.73
SVM RNA-class probability 0.834084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8687808 105 + 27905053
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUGAGAAAAACAAAUAGGUGUACAAGUUGCAUUAAUCAAAAAUAAAA
..((((....(((((((.((......)).))))...)))....(((........)))..))))...........((((((.....)))))).............. ( -18.40)
>DroSec_CAF1 114767 105 + 1
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUGAGAAAAACAAAUAGGUGUACAAGUUGUAGCAAUCAAAAAUUAAA
..........(((((((.((......)).))))...)))....(((((((....((((((..............))))))...))))).)).............. ( -20.04)
>DroSim_CAF1 131348 105 + 1
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUGAGAAAAAUAAAUAGGUCUAAAAGUUGUAGUAAUCAAAAAUGAAA
..((((((..(((((((.((......)).))))...)))....(((........)))..........................)))).))............... ( -16.10)
>DroEre_CAF1 128668 104 + 1
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUG-GAAAAACCAAUAGCUGUACAAUUUGUGUGAAUCAAAAAUUAAA
..........(((((((.((......)).))))...)))...(((((((..(((.((..((-(.....)))...))))).....))))))).............. ( -22.10)
>DroYak_CAF1 121155 105 + 1
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUGAGAAAAACCAAUGGCAGUUAAAUUUGUAUAAAUACAAAAUUUAC
..((((....(((((((.((......)).))))...)))....(((........)))..))))....................((((((....))))))...... ( -18.50)
>consensus
CCCUCAACAAGCUGUGCCGGCUAAUACCUGCACACAAGCAACCGCACAAUCACAUGCACUGAGAAAAACAAAUAGGUGUACAAGUUGUAUUAAUCAAAAAUUAAA
..((((....(((((((.((......)).))))...)))....(((........)))..)))).......................................... (-14.70 = -14.90 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:47 2006