Locus 5471

Sequence ID 3R_DroMel_CAF1
Location 14,450,180 – 14,450,294
Length 114
Max. P 0.719652
window8912

overview

Window 2

Location 14,450,180 – 14,450,294
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.64
Mean single sequence MFE -25.40
Consensus MFE -18.28
Energy contribution -17.96
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -1.88
Structure conservation index 0.72
SVM decision value 0.40
SVM RNA-class probability 0.719652
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14450180 114 + 27905053
GCCGGGUGAACAUGUCUCCAUGUCCAUGGCUGUGCACUCCACCAUCGGCAGACACCAAAUACUUCCUUCAUUAGGCUCACCCGCAGCCCAUUUCCCACUCCCA------CUACCCCAACC
(((((((((...(((((....(((.((((.((.......)))))).))))))))..........(((.....))).)))))))..))................------........... ( -24.00)
>DroSec_CAF1 7430 118 + 1
GCCGGGUGAACAUGU--CCAUGUCCAUGGCUGUGCACUCCACCAUCGGCAGACACCAAAUACUUCCUUCAUUAGGCUCACCCGCAGCCCAUUUCCCACUCCCACUCCUACUAUCCCAAAC
(((((((((...(((--(..((((.((((.((.......)))))).))))))))..........(((.....))).)))))))..))................................. ( -24.80)
>DroSim_CAF1 8019 112 + 1
GCCGGGUGAACAUGU--CCAUGUCCAUGGCUGUGCACUCCACCAUCGGCAGACACCAAAUACUUCCUUCAUUAGGCUCACCCGCAGCCCAUUUCCCACUCCCA------CUACCCCAAAC
(((((((((...(((--(..((((.((((.((.......)))))).))))))))..........(((.....))).)))))))..))................------........... ( -24.80)
>DroEre_CAF1 7246 112 + 1
GCCGGGUGAACAUG--------UCCAUAGCUGUGCACUCCGGCAUUGGUAGACACCGAAUACUUCCUUCAUUAGGCUCACCCGCAGCCCAUUUCCCACUCCCAUUCCCAUUCCCCCUACC
((((((((.(((.(--------(.....))))).))).)))))...(((((.....(((.......)))....(((((....).))))...........................))))) ( -26.20)
>DroYak_CAF1 8096 105 + 1
GCCGGGUGAACAUG--------UCCAUAGCUGUGUACUCCGGCAUCGGCAGACACCGAAUACUUCCUUCAUUAGGCUCACCCGGAGCCCAUUUCCCACUCCCCCUA-------CCCUAGC
((((((((.(((.(--------(.....))))).))).))))).((((......))))...............(((((.....)))))..................-------....... ( -27.20)
>consensus
GCCGGGUGAACAUGU__CCAUGUCCAUGGCUGUGCACUCCACCAUCGGCAGACACCAAAUACUUCCUUCAUUAGGCUCACCCGCAGCCCAUUUCCCACUCCCA_U____CUACCCCAAAC
(((((((((...................((((((........)).))))...............(((.....))).)))))))..))................................. (-18.28 = -17.96 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:40 2006