Locus 1461

Sequence ID X_DroMel_CAF1
Location 4,400,601 – 4,400,701
Length 100
Max. P 0.593828
window2332

overview

Window 2

Location 4,400,601 – 4,400,701
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.63
Mean single sequence MFE -23.08
Consensus MFE -17.60
Energy contribution -18.20
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 0.76
SVM decision value 0.12
SVM RNA-class probability 0.593828
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4400601 100 + 22224390
GUGAAUAAAUUUAAAUGAAAGUUCUUUUAUUUAUUGCUAUUACAGCGGCAAGAUGCUGC--------------------UUAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
.....................(((((((.....((((......((((((.....)))))--------------------)...(((((.....))))).....))))...)))))))... ( -22.80)
>DroSec_CAF1 3323 100 + 1
GUGAAUAAAUUUAAAUGAAAGUUCUUUUAUUUAUUGCUAUUACAGCGGCAAGAUGCUGC--------------------UUAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
.....................(((((((.....((((......((((((.....)))))--------------------)...(((((.....))))).....))))...)))))))... ( -22.80)
>DroSim_CAF1 3354 100 + 1
GUGAAUAAAUUUAAAUGAAAGUUCUUUUAUUUAUUGAUAUUACAGCGGCAAGAUGCUGC--------------------UUAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
((((.......(((((((((....)))))))))......))))((((((.....)))))--------------------)...(((((.....)))))..(((....))).......... ( -21.22)
>DroEre_CAF1 3535 120 + 1
GUGAAUAAAUGUAAAUGAAAGUUCUUUUAUUUAUUGCUAUUACACCGGCGAGAUGCUGCUUCAUUUUGUCUACACUCUCCCAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
(((((((...((((((((((....))))))))))...)))).))).(((((((((......))))))))).....((((....(((((.....)))))((...))....))))....... ( -27.40)
>DroYak_CAF1 3370 100 + 1
GUGAAUAAAUGUAAAUGAAAGUUCUUUUAUUUAUUGCUAUUACACCGGCAAGAUGCUGC--------------------CCAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
(((((((...((((((((((....))))))))))...)))).))).((((......)))--------------------)...(((((.....)))))..(((....))).......... ( -21.20)
>consensus
GUGAAUAAAUUUAAAUGAAAGUUCUUUUAUUUAUUGCUAUUACAGCGGCAAGAUGCUGC____________________UUAUGCACUUAGAAAGUGCGCCAUGCAAAUGAGAAGAAAUU
.....................(((((((.....((((.......(((((.....)))))........................(((((.....))))).....))))...)))))))... (-17.60 = -18.20 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:00 2006