Locus 6299

Sequence ID X_DroMel_CAF1
Location 15,964,404 – 15,964,522
Length 118
Max. P 0.929674
window10267

overview

Window 7

Location 15,964,404 – 15,964,522
Length 118
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 75.65
Mean single sequence MFE -19.20
Consensus MFE -17.92
Energy contribution -17.92
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.93
Structure conservation index 0.93
SVM decision value 1.20
SVM RNA-class probability 0.929674
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15964404 118 + 22224390
GUUUGUGUAAAAGGAACAAAAAAAAAAAAAGAAAAAAAUAUAGAGGGAAU-ACCACAUAGUUGGGUCGCUUGAAGUAUUGAUUGAUUAAUGAACUGAAUAUUUCAUGUGUCCGGUGGUG
((((.(.....).))))................................(-(((((.....((((.(((.(((((((((.(.............).))))))))).))))))))))))) ( -20.72)
>DroSec_CAF1 32629 90 + 1
GUUUGUGUAAAAGGAAAAAAA---------------------------AU-ACCACAUAGUUGGGUCGC-UGAAGUAUUGAUUGAUUAAUGAACUGAAUAUUUCAUGUGUCCGGUGGUG
.....................---------------------------.(-(((((.....((((.(((-(((((((((.(.............).))))))))).))))))))))))) ( -17.82)
>DroSim_CAF1 23688 90 + 1
GUUUGUGUAAAAGGAAAAAAA---------------------------AU-ACCACAUAGUUGGGUCGC-UGAAGUAUUGAUUGAUUAAUGAACUGAAUAUUUCAUGUGUCCGGUGGUG
.....................---------------------------.(-(((((.....((((.(((-(((((((((.(.............).))))))))).))))))))))))) ( -17.82)
>DroEre_CAF1 31710 93 + 1
A-----------GCAAAA--A------A------UAUAUACAGAGGGUAUGACCACUUGGUUGGGUCGC-UGAAGUAUUGAUUGAUUAAUGAACUGAAUAUUUCAUGUGUCCGGUGGUG
.-----------......--.------.------..(((((.....)))))((((((......((.(((-(((((((((.(.............).))))))))).))).)))))))). ( -20.42)
>consensus
GUUUGUGUAAAAGGAAAAAAA___________________________AU_ACCACAUAGUUGGGUCGC_UGAAGUAUUGAUUGAUUAAUGAACUGAAUAUUUCAUGUGUCCGGUGGUG
...................................................(((((.....((((.(((.(((((((((.(.............).))))))))).)))))))))))). (-17.92 = -17.92 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:59 2006