Locus 1947

Sequence ID 3R_DroMel_CAF1
Location 5,495,554 – 5,495,662
Length 108
Max. P 0.581232
window3201

overview

Window 1

Location 5,495,554 – 5,495,662
Length 108
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 82.64
Mean single sequence MFE -30.00
Consensus MFE -16.68
Energy contribution -17.84
Covariance contribution 1.16
Combinations/Pair 1.31
Mean z-score -2.07
Structure conservation index 0.56
SVM decision value 0.10
SVM RNA-class probability 0.581232
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5495554 108 - 27905053
AGUUCCAAAUCCAAUGGUAGAGCACAGAUCUCUUGGAAUAGAAAGGAGAAAGGAAUCCCCUUUGGG-GGUUUCUGCUGUCAACAUGAAUUCACUACCAUUUCAGGACAU
.........(((((((((((.(.((((.((((((.........)))))).((((((((((...)))-))))))).)))))....((....))))))))))...)))... ( -33.40)
>DroSec_CAF1 26292 108 - 1
AGUUCCAAAUCCAAUGGUAGAGCACAGAUCUCUUGAAAUAGAAAGGAGAAAGAGAUCCCCCUUGGG-GGUUUCUGCUGUCAACAUGAAUUCACUACCAUUCCAGGACAU
.........(((((((((((.(.((((.((((((.........)))))).((((((((((...)))-))))))).)))))....((....))))))))))...)))... ( -34.00)
>DroSim_CAF1 28471 109 - 1
AGUUCAAAAUCCAAUGGUAGAGCACAGAUCUCUUGAAAUAGAAAGGAGAAAGGGAUCCCCUUUGGGGGGUCUCUGCUGUCAACAUGAAUUCACUCCCAUUCCAGGACAU
.........((((((((.((.(.((((.((((((.........)))))).((((((((((....)))))))))).)))))....((....)))).)))))...)))... ( -33.00)
>DroEre_CAF1 26473 107 - 1
AGUUCCAAAUCCAAUUGUAGAGCACAAAUCCUUCGGAGUAGAACAGAGAAAGAAAUCCCCUGUGGG-GGCUCCU-UUGUCAACGUGCAUUUACUAUCCUUCCAGGACAU
.((((...........(((((((((.....(....).........((.((((.(..((((...)))-)..).))-)).))...)))).)))))..........)))).. ( -25.70)
>DroYak_CAF1 24897 99 - 1
AGUAC------CAGUUGUAGAGUACAGAA--AUAGAAAUAGAAAGGAGUAAGGGAUGCCCUGUGGG-GGCUCCU-CUGUCAACAUGAAUUCACUCCCAUUUCAGGACAU
.((.(------(..(((((...)))))..--.........(((((((((.(((((.((((.....)-)))))).-)).((.....))....)))))..)))).)))).. ( -23.90)
>consensus
AGUUCCAAAUCCAAUGGUAGAGCACAGAUCUCUUGAAAUAGAAAGGAGAAAGGGAUCCCCUUUGGG_GGUUUCUGCUGUCAACAUGAAUUCACUACCAUUCCAGGACAU
.((((.......((((((((.(.((((.((((((.........)))))).((((((((((...))).))))))).)))))....((....))))))))))...)))).. (-16.68 = -17.84 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:36 2006