Locus 1407

Sequence ID 2R_DroMel_CAF1
Location 5,440,315 – 5,440,420
Length 105
Max. P 0.557292
window2414

overview

Window 4

Location 5,440,315 – 5,440,420
Length 105
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 88.18
Mean single sequence MFE -23.64
Consensus MFE -17.22
Energy contribution -17.38
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.65
Structure conservation index 0.73
SVM decision value 0.05
SVM RNA-class probability 0.557292
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5440315 105 + 20766785
AAAUUAUAUAUAAUCAAAUUGCCCUAUCGGCAUAUGAAAGGAGGGGUUUACAGCCCAUCGAUGAUCUGUAAAUAAUUACUAAGCCUUUGGGCGGAAUAAUAGCUC------
.((((((.((((((((...((((.....))))........((.((((.....)))).))..)))).)))).)))))).....(((....))).............------ ( -22.80)
>DroSec_CAF1 28851 105 + 1
AAAUUAUAAAUAAUCAAAUUGCCCUAUCGGCAUAUAAAAGGAGCGGUUUACAGCCCAUCGAUGAUCUGUAAAUAAUUACUAAGCCUUUGGGCGGAAUGAUAACUC------
............((((..((((((....(((........((.((........))))...........((((....))))...)))...))))))..)))).....------ ( -22.20)
>DroSim_CAF1 28927 105 + 1
AAAAUAUAAAUAAUCAAAUUGCCCUAUCGGCAUAUAAAAGGAGCGGUUUACAGCUCAUCGAUGAUCUGUAAAUAAUUACUAAGAUUUUGGGCGGAAUUAUAGCUC------
..................((((((.(((.((...........)).((((((((.(((....))).)))))))).........)))...))))))...........------ ( -20.90)
>DroEre_CAF1 29375 111 + 1
AAAUUAUAGAUAAUCAAAUUGCCCUAUCGGCAUAUGAAAGGAGGGGCUUACUGCCCAUCGAUGAUCUGUAAAUAAUUACUAAGCCACUGGGCGGAAUGAAAAUUUUAGAAU
...((((((((.(((....((((.....))))........((.((((.....)))).))))).))))))))...........(((....)))(((((....)))))..... ( -29.80)
>DroYak_CAF1 29797 105 + 1
AAAUUAUAGAUAAUUAAAUUGCCUUAUCGGCAAAUAAAAGGAGGGGUUUACAGCCCAUCGAUGAUCUGUAAAUAAUUACUACGCCUAUGGACGGAAUGAUAAGUC------
...((((((((.(((...(((((.....))))).......((.((((.....)))).))))).))))))))...((((...((((...)).))...)))).....------ ( -22.50)
>consensus
AAAUUAUAAAUAAUCAAAUUGCCCUAUCGGCAUAUAAAAGGAGGGGUUUACAGCCCAUCGAUGAUCUGUAAAUAAUUACUAAGCCUUUGGGCGGAAUGAUAACUC______
..................((((((....(((.........((.((((.....)))).))........((((....))))...)))...))))))................. (-17.22 = -17.38 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:08 2006