Locus 9253

Sequence ID 3R_DroMel_CAF1
Location 24,672,929 – 24,673,049
Length 120
Max. P 0.708315
window14794

overview

Window 4

Location 24,672,929 – 24,673,049
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.25
Mean single sequence MFE -30.40
Consensus MFE -21.88
Energy contribution -22.72
Covariance contribution 0.84
Combinations/Pair 1.18
Mean z-score -1.88
Structure conservation index 0.72
SVM decision value 0.37
SVM RNA-class probability 0.708315
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24672929 120 + 27905053
GCCGCUUCAAUGGGUUUUCUUCGCCCAGAUAAGCACCAAUAUUCAUUGUUUAUGGGAUGCUCUACCCAAGGGAAUAUGUCCUACGAUGUAAUGCCUAAAAUGUUUCCAUAAAAUUAAUAA
...((((...(((((.......)))))...))))..............(((((((((.((........(((.(.((((((....)))))).).))).....)))))))))))........ ( -25.62)
>DroSec_CAF1 13957 120 + 1
GCCGCUUCAAUGGGUUUUCCUCGCCCAGAUAAGCACCAAUAUUCAUUGUUUAUGGGUUGCUCUAUCCAAGGGUAUACGUCCUGUGAUGUAAAGCCUAUAAUGUUCCAAUAAAAUAAAUAA
...((((...(((((.......)))))...))))..........((((.((((((((((((((.....))))).((((((....)))))).))))))))).....))))........... ( -28.80)
>DroSim_CAF1 13951 120 + 1
GCCGCUUCAAUGGGUUUUCCUCGCCCAAAUAAGCACCAAUAUUCAUUGUUUAUGGGAUGCUCUACCCAAGGGAAUAUGUCCUGCGAUGUAACGCUUAAAAUGUUCCAAUAAAAUGAAUAA
...((((...(((((.......)))))...)))).....((((((((.....((((........))))..(((((((.....(((......))).....))))))).....)))))))). ( -33.40)
>DroEre_CAF1 15456 120 + 1
GCCGCUUCAAUGGGUUUUCUUCGCCCAGAUAAGCGCCAAUAUUCAUUGUUUAUGGGAUGCUCUACCCAAGGGAGUAUGUCCAGCGAUAUAACGCCGAAAAUGUUCCAACAAAAUGGCAAA
...((((...(((((.......)))))...))))((((...(((........(((((((((((.......))))))).))))(((......))).)))..(((....)))...))))... ( -32.60)
>DroYak_CAF1 14272 120 + 1
GCCGCUUCAAUGGGUUUUCUUCGCCCAGAUAAGCGCCCUUAUUCAUUGUUUAUGGGAUGCUCUUACUAAGAGUAUUUGCCUAACGAUAAAACGCCUAAAUGGUUUCAAUAAAAUGGCAAA
(((((((...(((((.......)))))...))))....(((((.((((((...((((((((((.....))))))))..)).)))))).....(((.....)))...)))))...)))... ( -31.60)
>consensus
GCCGCUUCAAUGGGUUUUCUUCGCCCAGAUAAGCACCAAUAUUCAUUGUUUAUGGGAUGCUCUACCCAAGGGAAUAUGUCCUGCGAUGUAACGCCUAAAAUGUUCCAAUAAAAUGAAUAA
...((((...(((((.......)))))...)))).....((((((((.....((((((.((((.....))))..((((((....))))))...........))))))....)))))))). (-21.88 = -22.72 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:29:58 2006