Locus 4416

Sequence ID 3L_DroMel_CAF1
Location 12,907,179 – 12,907,283
Length 104
Max. P 0.974775
window6844

overview

Window 4

Location 12,907,179 – 12,907,283
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.41
Mean single sequence MFE -35.64
Consensus MFE -12.42
Energy contribution -13.66
Covariance contribution 1.24
Combinations/Pair 1.18
Mean z-score -2.25
Structure conservation index 0.35
SVM decision value 1.74
SVM RNA-class probability 0.974775
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12907179 104 + 23771897
AAAGGAUGCGGAUGCGGAG------GCGGAGCAGGAGUG------G---UAGUGGAAGUGGAAGUCGC-AUUGCCAUUGCUGAUGGUGAUAAAAUAAAACACGCCGCACGCACCCCAUGC
...(.(((.((.((((...------((((..(((.((((------(---(((((((........)).)-))))))))).)))...(((...........))).)))).)))).))))).) ( -37.90)
>DroSec_CAF1 27980 98 + 1
AAAGGAUGCGGAUGCGGAG------GCGGAGCAGGAGUG------G---UAGU------GGAAGUCGC-AUUGCCAUUGCUGAUGGUGAUAAAAUAAAACACGCCGCACGCACCCCAUGC
...(.(((.((.((((...------((((..(((.((((------(---((((------((....).)-))))))))).)))...(((...........))).)))).)))).))))).) ( -37.30)
>DroSim_CAF1 25769 104 + 1
AAAGGAUGCGGAUGCGGAG------GCGGAGCAGGAGUG------G---CAGUGGAAGUGGAAGUCGC-AUUGCCAUUGCUGAUGGUGAUAAAAUAAAACACGCCGCACGCACCCCAUGC
...(.(((.((.((((...------((((..(((.((((------(---(((((((........)).)-))))))))).)))...(((...........))).)))).)))).))))).) ( -39.90)
>DroYak_CAF1 30585 119 + 1
AAAGGAUGCGGAUGCGGAGGCGGAGGCGGAGCAGGAGUGGAAGUAGCAGUAGUAGCAGUAGAAGUCGC-AUUGCCAUUGCUGAUGGCGAUAAAAUAAAGCAAGCCUCACGCACCCCAUGC
...(.(((.((.(((((((((....((...((....))....((..(((((((.(((((.(....)..-))))).)))))))...))...........))..))))).)))).))))).) ( -38.30)
>DroAna_CAF1 54878 85 + 1
AAAGAAAGAGGA------------------CCA-CUGUG------C---UGGU------CCAAGUCCUGGUUCCUCUUGGUGAUGGCGAUAAAAUAAAGUGCGCCUUACGCACCCU-CGG
...(((((((((------------------(((-..(..------(---(...------...))..)))).)))))))((((..((((((........)).)))).....)))).)-).. ( -24.80)
>consensus
AAAGGAUGCGGAUGCGGAG______GCGGAGCAGGAGUG______G___UAGU_G_AGUGGAAGUCGC_AUUGCCAUUGCUGAUGGUGAUAAAAUAAAACACGCCGCACGCACCCCAUGC
...((.((((...((((.............((....)).........................(((((.(((((....)).))).))))).............)))).)))).))..... (-12.42 = -13.66 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:03 2006