Locus 1071

Sequence ID 2L_DroMel_CAF1
Location 2,958,445 – 2,958,542
Length 97
Max. P 0.628567
window1729

overview

Window 9

Location 2,958,445 – 2,958,542
Length 97
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 72.84
Mean single sequence MFE -14.52
Consensus MFE -0.30
Energy contribution -0.10
Covariance contribution -0.20
Combinations/Pair 1.43
Mean z-score -1.42
Structure conservation index 0.02
SVM decision value 0.20
SVM RNA-class probability 0.628567
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2958445 97 + 22407834
GAAAACAGAAAAGGACUUCAGGAG-CUACCAAAAAGUUUAAGAAAUUUAAAGGAGUGUCAGAUAUUCUUAAAGAGUGUAAA--AAAACUGAUUCUA-UAUU
............(((..(((((((-((.((...(((((.....)))))...))))).))..((((((.....))))))...--....)))).))).-.... ( -12.70)
>DroSec_CAF1 19666 100 + 1
GAAAACAGAAUAGGACUUCAGGAG-CUACCAAAAAGUUUGUGAAAUUUAAAGGAGUAUCAGAUAUUCUUAAAGAGUGUCAAAGAAAACUGAUUCCAUUAUU
............(((..(((((((-((.((...(((((.....)))))...))))).)).(((((((.....)))))))........)))).)))...... ( -19.00)
>DroSim_CAF1 11652 100 + 1
GAAAACAGAAAAGGACUUCAGGAG-CUACCAAAAAGUUUGUGAAAUUUAAAGAAGUAGCAGAUAUUCUUAAAGAGUGUUAAAGAAAACUGAUUCCAUUAUU
............(((..((((..(-((((....(((((.....)))))......))))).(((((((.....)))))))........)))).)))...... ( -18.50)
>DroEre_CAF1 10965 78 + 1
GAAAACGAAAA-GGAAUUCACGAG-CUGCCAAAAAGUUUGUGAAAUUU---------------------AAAGAGUGUCAACGAAAAAUGAUUUUACUAUA
...........-....((((((((-((.......))))))))))....---------------------....(((((((........))))...)))... ( -12.90)
>DroYak_CAF1 11173 80 + 1
GAAAACGAAAAUGGACUUCAUGGGACAAACAAAAAGUUUAAGUUUUUA---------------------AAAGAGUGUCAAAGAAAUAUGAUUAUACUAUU
((((((.....(((((((..((.......))..))))))).)))))).---------------------....(((((((.(....).))))...)))... (  -9.50)
>consensus
GAAAACAGAAAAGGACUUCAGGAG_CUACCAAAAAGUUUGUGAAAUUUAAAG_AGU__CAGAUAUUCUUAAAGAGUGUCAAAGAAAACUGAUUCUACUAUU
............(((..((((..................................................................)))).)))...... ( -0.30 =  -0.10 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:42 2006