Locus 727

Sequence ID 2R_DroMel_CAF1
Location 3,560,651 – 3,560,743
Length 92
Max. P 0.937410
window1280

overview

Window 0

Location 3,560,651 – 3,560,743
Length 92
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 77.41
Mean single sequence MFE -20.30
Consensus MFE -5.12
Energy contribution -5.48
Covariance contribution 0.36
Combinations/Pair 1.19
Mean z-score -2.23
Structure conservation index 0.25
SVM decision value 1.26
SVM RNA-class probability 0.937410
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3560651 92 + 20766785
GUAGCGUUCUCUCCU---UUUACCACGCGUUUUUUCUU----AUAUGGAUAAUAUUCUAU-CCAUAUGAGCUUAGUUAUUCAAGAUUAUGACCCGCUUCC
..((((.........---.................(((----(((((((((......)))-)))))))))....(((((........))))).))))... ( -19.50)
>DroSec_CAF1 39703 90 + 1
GUAGAGUUAUCUCCU---GUUACCAUGCGUU--UUCUU----AUAUGGAUAAUAUUCUAU-CCAUAUGAGCUUAGUUUUCCAAGAUUAUGAUCCGCUUCC
...(((....)))..---........(((..--(((((----(((((((((......)))-)))))))))..((((((....)))))).))..))).... ( -19.00)
>DroSim_CAF1 35275 88 + 1
--AGAGUUAUCUCCU---GUUACAACGCGUU--UUCUU----AUAUGGAUAAUAUUCUAU-CCAUAUGAGCUUAGUUUUCCAAGAUUAUGAUCCGCUUCC
--.(((....)))..---........(((..--(((((----(((((((((......)))-)))))))))..((((((....)))))).))..))).... ( -19.30)
>DroEre_CAF1 27397 87 + 1
AUGGCGGUUUGUCUU---GUUGCUUUCCAUC--UU-------AUAGGGAUAAUAUUCCAUUCCAUAUGAGCUAAG-UUUUGGAGAUUAUGACCCGCUGCC
..((((((..(((..---..((.((((((.(--((-------((((((((........))))).)))))).....-...)))))).)).)))..)))))) ( -23.20)
>DroYak_CAF1 18603 98 + 1
AUAGCGUUAUCCCUUGUUGUUGCUUUGCAUC--UUCUUACAAAUAUGGAUAGCAUUCUAUUCCAUAUGAGCUUACUUUUUGGAGAUUAUGACCCGCUGCA
.(((((((((((....(((((((...)))..--.....))))....)))))))......(((((...(((....)))..)))))..........)))).. ( -20.51)
>consensus
AUAGCGUUAUCUCCU___GUUACCAUGCGUU__UUCUU____AUAUGGAUAAUAUUCUAU_CCAUAUGAGCUUAGUUUUUCAAGAUUAUGACCCGCUUCC
..((((......................................(((((......)))))..((((....(((........)))..))))...))))... ( -5.12 =  -5.48 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:44 2006