Locus 7580

Sequence ID 3R_DroMel_CAF1
Location 20,316,485 – 20,316,593
Length 108
Max. P 0.756826
window12235

overview

Window 5

Location 20,316,485 – 20,316,593
Length 108
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 70.77
Mean single sequence MFE -27.05
Consensus MFE -20.17
Energy contribution -20.33
Covariance contribution 0.17
Combinations/Pair 1.15
Mean z-score -0.78
Structure conservation index 0.75
SVM decision value 0.49
SVM RNA-class probability 0.756826
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20316485 108 + 27905053
-------GUUAAGCUCAGCACUAAAUGUGCAUAAUUUACUGAAACCAUUUUCCUCUUACAGGAAGAUCAGGACUGGGGCUUUGUGGCCAUGGUCAUGGAUCGCCUAUUCCUCUGG
-------..........((((.....))))..............((((((((((.....)))))))..((((.(((((.((..((((....))))..)).).)))).)))).))) ( -31.00)
>DroGri_CAF1 159872 99 + 1
UUUUUCUAAUUGGUUUAAAAUUCUUUGU--------------GUAU--UAUUCAAUAACAGGAGGAUCAGGACUGGGGCUUUGUUGCCAUGGUCAUGGAUCGCCUAUUCCUCUGG
.....................(((((.(--------------((((--(....))).))).))))).(((((((..(((......)))..))))..(((........))).))). ( -20.80)
>DroSec_CAF1 125270 108 + 1
-------GUUUAUUUCAGCACUCAAUGUGCAUAAUUUAAUGAGACCAUUUUCCUUUUGCAGGAAGAUCAGGACUGGGGCUUUGUGGCCAUGGUCAUGGAUCGCCUGUUCCUCUGG
-------..........((((.....))))..........(((...((((((((.....))))))))..((((.((.(.((..((((....))))..)).).)).)))))))... ( -31.30)
>DroSim_CAF1 133693 108 + 1
-------GUUUAUUUCAGCACUCAAUGUGCAUAAUUUACUGAGACCAUUUACCUCUUGCAGGAAGAUCAGGACUGGGGCUUUGUGGCCAUGGUCAUGGAUCGCCUGUUCCUCUGG
-------((..(((...((((.....))))..)))..))............((....(((((..((((..((((..((((....))))..))))...)))).)))))......)) ( -30.60)
>DroEre_CAF1 128822 88 + 1
-------UAACCAUUUGGCACUU-------------------AACCAU-UUCCACUUACAGGAAGAUCAGGAUUGGGGCUUCGUGGCCAUGGUCAUGGAUCGCCUGUUCCUCUGG
-------...(((..(((.....-------------------..)))(-((((.......)))))...((((...((((((((((((....))))))))..))))..)))).))) ( -24.60)
>DroYak_CAF1 131658 82 + 1
--------------AUCACUUUU-------------------GGCCAUUUUCCUCUUACAGGAAGAUCAGGACUGGGGCUUCGUGGCGAUGGUCAUGGAUCGCCUGUUCCUCUGG
--------------.........-------------------..((((((((((.....)))))))..(((((.((.(.((((((((....)))))))).).)).).)))).))) ( -24.00)
>consensus
_______GUUUAGUUCAGCACUCAAUGU______________GACCAUUUUCCUCUUACAGGAAGAUCAGGACUGGGGCUUUGUGGCCAUGGUCAUGGAUCGCCUGUUCCUCUGG
...................................................((....(((((..((((..(((((.((((....)))).)))))...)))).)))))......)) (-20.17 = -20.33 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:24 2006