Locus 1299

Sequence ID 2L_DroMel_CAF1
Location 3,428,734 – 3,428,850
Length 116
Max. P 0.775582
window2127

overview

Window 7

Location 3,428,734 – 3,428,850
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 82.05
Mean single sequence MFE -29.40
Consensus MFE -19.58
Energy contribution -20.82
Covariance contribution 1.24
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.67
SVM decision value 0.54
SVM RNA-class probability 0.775582
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3428734 116 - 22407834
ACUAUAUUCCUAAUUUAAUAAAAUUUUGUUCAGUGCAUGUGUGCCACCUUGUGAUAAGGCAGCCGCUAAUUCCUCGGCAUGCCCCGCGACAAUAAAAUGGCAACAAUAGGCACACA
..........................(((.....)))((((((((...(((((....((((((((.........)))).)))).)))))........((....))...)))))))) ( -30.30)
>DroSec_CAF1 17675 116 - 1
GCUAUAUUCAAAAUUUAAUAGAAUUUUGUUCAGUGCAGGUGUGCCACCUUGUGAUAAGGCAGCCACUAAUUCCUCGGCAUGCCCCGCGACAAUAAAAUGGCAACAAAAGGCACACA
((......((((((((....))))))))......))..(((((((...(((((....(((((((...........))).)))).)))))........((....))...))))))). ( -35.20)
>DroSim_CAF1 17785 116 - 1
GCUAUAUUCACAAUUUAAUAGAAUUUUGUUCAGUGCAGGUGUGCCACCUUGUGAUAAGGCAGCCACUAAUUCCUCGGCAUGCCCCGCGACAAUAAAAUGGCAACAAAAGGCACACA
((......((.(((((....))))).))......))..(((((((...(((((....(((((((...........))).)))).)))))........((....))...))))))). ( -31.70)
>DroEre_CAF1 18128 114 - 1
GCUGGAUUCCGAAC-UAAUAGAAUUUCGCUCAGUGCAGGUGUGCCACCUUGUGAUAAGGCAGCCACUAAUGCCUCGGCAUGCCCCCCG-CAUUAAAAUGGCAACAAAAGGCACACA
.(((.(((.((((.-.........))))...))).)))(((((((.(((((...)))))..((((.((((((...((....))....)-)))))...)))).......))))))). ( -33.80)
>DroYak_CAF1 19203 89 - 1
AUUUCAUUC---------------UUU--GCAGUGCAGGUGUGUCAACUUUUGAUAAGGCAGCCACUAAUUCCUCGGCAUGUCCCGCGACAAUAAAAUGCCAACAA----------
.........---------------(((--((...)))))..(((((.....))))).(((((((...........))).((((....))))......)))).....---------- ( -16.00)
>consensus
GCUAUAUUCA_AAUUUAAUAGAAUUUUGUUCAGUGCAGGUGUGCCACCUUGUGAUAAGGCAGCCACUAAUUCCUCGGCAUGCCCCGCGACAAUAAAAUGGCAACAAAAGGCACACA
......................................(((((((............(((((((...........))).))))..............((....))...))))))). (-19.58 = -20.82 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:03 2006