Locus 1044

Sequence ID X_DroMel_CAF1
Location 3,027,136 – 3,027,239
Length 103
Max. P 0.595184
window1701

overview

Window 1

Location 3,027,136 – 3,027,239
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.40
Mean single sequence MFE -26.74
Consensus MFE -17.66
Energy contribution -17.70
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -1.57
Structure conservation index 0.66
SVM decision value 0.12
SVM RNA-class probability 0.595184
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3027136 103 - 22224390
UUAGCCGCGGACUCUUUAAGAGUCCCCUUUUGCUGUUAUCCUUGGCAAGCCAUCCAAUUAUCCUUGCGCGAUAUUCAACAUACCAAAUCAUCCAGAUC-----------------ACGGU
...((((.((((((.....))))))...((((.((((....((((((((.............))))).))).....))))...))))...........-----------------.)))) ( -20.22)
>DroSec_CAF1 7519 109 - 1
GUAGCCGCGGACUCUUUAAGAGUCCC--UCUGCUGUUAUCCUUGGC-AACCAUCCAAUUAUCCUGGCGCGUUAUCCAUCAUCC--GAUCAUCCAGAUCACCUUG------CGCUCACGGU
((((..(.((((((.....)))))))--.))))(((((....))))-).............(((((((((........)....--((((.....)))).....)------))).)).)). ( -26.50)
>DroSim_CAF1 2490 110 - 1
GUAGCCGCGGACUCUUUAAGAGUCCC--UCUGCUGUUAUCCUUGGCGAACCAUCCAAUUAUCCUGGCGCGAUGUCCAUCAUCC--GAUCAUCCAGAUCACCUCG------CGCUCACGGU
(((((.((((((((.....)))))).--...)).)))))..((((........))))....((((((((((((.....)))).--((((.....)))).....)------))).)).)). ( -31.60)
>DroEre_CAF1 7526 116 - 1
GUAGCCGCGGACUCUUUAAGAGUCCC--UCUGCUGUUAUCCUUGGCAAACCAUUCAAUUAUCCUUAUUCGAU-CCCAUCAUCC-AGAUCAUUCAGAUCAUCCAGAUUAUCGGCUUAUGGU
..(((((.((((((.....)))))).--((((.(((((....))))).........................-..........-.((((.....))))...))))....)))))...... ( -25.10)
>DroYak_CAF1 7501 114 - 1
GUAGCCGCGGACUCUUUAAGAGUCCC--UCUGCUGUUAUCCUUGGCAAACCAUCC--UCAUCCGAUCUCAAU-CAGAUCACCC-AGAUCAUCCAGAUCAUGUGGAACACCGACUUAUGGU
((((..(.((((((.....)))))))--.))))(((((....))))).(((((..--((....(((((....-.))))).(((-(((((.....)))).)).))......))...))))) ( -30.30)
>consensus
GUAGCCGCGGACUCUUUAAGAGUCCC__UCUGCUGUUAUCCUUGGCAAACCAUCCAAUUAUCCUGGCGCGAU_UCCAUCAUCC_AGAUCAUCCAGAUCACCU_G______CGCUCACGGU
...((((.((((((.....)))))).....(((((.......)))))......................................((((.....))))..................)))) (-17.66 = -17.70 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:18 2006