Locus 3573

Sequence ID X_DroMel_CAF1
Location 9,594,336 – 9,594,428
Length 92
Max. P 0.936633
window5845

overview

Window 5

Location 9,594,336 – 9,594,428
Length 92
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 75.79
Mean single sequence MFE -23.40
Consensus MFE -5.70
Energy contribution -5.66
Covariance contribution -0.04
Combinations/Pair 1.19
Mean z-score -2.09
Structure conservation index 0.24
SVM decision value 1.25
SVM RNA-class probability 0.936633
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9594336 92 - 22224390
CAACAUGGUUCAAUAU----GGAUCCUUACAAUGGCAAAUGG------------------GACUG----CAAAAAGUGGCAGUUAAAACUUAAGAGUCCAUCAAA-AUAUGACUAUUAA
...((((.......((----(((..((((((........)).------------------(((((----(........))))))......))))..)))))....-.))))........ ( -17.30)
>DroSec_CAF1 53040 92 - 1
CAACAUGGUUCAAUAU----GGAUCCUUACAAUGGCAAAUGG------------------GACUG----CCAAAAUGGGCAGUUAAAACUUUAGAGUCCAUCAAA-AUAUGCCUAUUAA
......(((((.....----)))))........((((.....------------------(((((----((......))))))).........((.....))...-...))))...... ( -19.50)
>DroSim_CAF1 39540 92 - 1
CAACAUGGUUCAAUAU----GGAUCCUUACAAUGGCAAAUGG------------------GAAUG----CCAAAAUGGGCAGUUAAAACUUUAGAGUCCAUCAAA-AUAUGCCUAUUAA
......(((((.....----))))).......(((((.....------------------...))----))).((((((((((....))....((.....))...-...)))))))).. ( -17.40)
>DroEre_CAF1 57845 115 - 1
CAACAUGGCACCAUAUAUGUAGAUCCUUCAAAUGGUAAAUGACAUUUGAAUGAUCUGUGGGCCUG----CAAAAAGUGGCAGUUAAAACUUAAGGGUCCAUCAAAAAAAUUCCUAUUAA
..(((((........)))))(((((.((((((((........)))))))).)))))((((((((.----....((((..........))))..)))))))).................. ( -28.80)
>DroYak_CAF1 55897 114 - 1
CAACAUGGCUCAAUAU----AGAUCCUUCAAAUGGUAAAUGGCAUUUGAAUGAUCUGUGCGGCUGGCGGGAAAAGCUGGCAGUUAAAACGUAAGAGUCCAUCAAA-AAAUGCACAUUAA
....(((((((..(((----(((((.((((((((.(....).)))))))).)))))))).(((((.(((......))).))))).........))).))))....-............. ( -34.00)
>consensus
CAACAUGGUUCAAUAU____GGAUCCUUACAAUGGCAAAUGG__________________GACUG____CAAAAAGUGGCAGUUAAAACUUAAGAGUCCAUCAAA_AUAUGCCUAUUAA
....(((((((.............((.......)).........................(((((....((.....)).))))).........))).)))).................. ( -5.70 =  -5.66 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:43 2006