Locus 6382

Sequence ID 2R_DroMel_CAF1
Location 19,971,908 – 19,972,015
Length 107
Max. P 0.621150
window10189

overview

Window 9

Location 19,971,908 – 19,972,015
Length 107
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 81.65
Mean single sequence MFE -26.06
Consensus MFE -14.02
Energy contribution -14.78
Covariance contribution 0.76
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 0.54
SVM decision value 0.18
SVM RNA-class probability 0.621150
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19971908 107 + 20766785
GCCGCAAAAUCUGUACAAAGAAAUGCCAUAAAACGCCAGC-----CGCAGUCACGACACCCAAAA------ACCAAAAACGGUGAUAUGAACGAAAAAUGCGGUUAUGGCAGUUGGGC
(((.(((..(((......)))..(((((((........((-----((((.(((...((((.....------.........))))...)))........))))))))))))).)))))) ( -26.94)
>DroSec_CAF1 12983 107 + 1
GCCGCAAAAUCUUUACAAAGAAAUGCCAUAAAACGCCAGC-----CGCAGUCACGACACCCAAAA------ACCAAAAACGGUGAUAUGAACGAAAAAUGCGGUUAUGGCAGUUCGGU
((((((...((((....))))..)))........((((((-----((((.(((...((((.....------.........))))...)))........))))))..)))).....))) ( -25.24)
>DroSim_CAF1 13504 107 + 1
GCCGCAAAAUCUGUACAAAGAAAUGCCAUAAAACGCCAGC-----CGCAGUCACGACACCCAAAA------ACCAAAAACGGUGAUAUGAACGAAAAAUGCGGCUAUGGCAGUUGGGC
(((.(((..(((......)))..((((((........(((-----((((.(((...((((.....------.........))))...)))........))))))))))))).)))))) ( -28.64)
>DroEre_CAF1 13075 110 + 1
GCCGCAAAAUCUGUACAAAGAAAUGCCAUAAAACGCCAGC-----CGCAGUCACGACACCC--AAACCAAAAACCAAAAUGGUGAUAUGAACGAA-AAUGCGGUUAUGGCAGUUGGGC
(((.(((..(((......)))..(((((((........((-----((((....((......--..((((..........))))........))..-..))))))))))))).)))))) ( -27.39)
>DroWil_CAF1 20670 102 + 1
GCCACA-AAUCUGUACAAAGAAAUGGCAUAAACUGGCGGCAACACCGCAGCC-CGCCAG--------------UCACAAUGACAAAAUGAACGAAUAAUGCGGUUAUGGAACUUCUAC
.(((..-..(((......)))(((.((((....(((((((.........).)-)))))(--------------((.....)))..............)))).))).)))......... ( -22.10)
>consensus
GCCGCAAAAUCUGUACAAAGAAAUGCCAUAAAACGCCAGC_____CGCAGUCACGACACCCAAAA______ACCAAAAACGGUGAUAUGAACGAAAAAUGCGGUUAUGGCAGUUGGGC
(((......(((......)))..((((((((..((((.((......)).((....)).......................)))).......((.......)).))))))))....))) (-14.02 = -14.78 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:39 2006