Locus 3009

Sequence ID 2R_DroMel_CAF1
Location 10,379,170 – 10,379,275
Length 105
Max. P 0.607324
window4966

overview

Window 6

Location 10,379,170 – 10,379,275
Length 105
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.92
Mean single sequence MFE -34.00
Consensus MFE -19.81
Energy contribution -20.26
Covariance contribution 0.45
Combinations/Pair 1.33
Mean z-score -1.59
Structure conservation index 0.58
SVM decision value 0.15
SVM RNA-class probability 0.607324
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10379170 105 - 20766785
UAGUAUGCCUCCCGUGCCACCG---GUGACCAUGACCAAGGCCAUAAAUUCCCUUGACAAUCCAAUGGCUGAUGUAGUGCGAAGCAUCACGAUCGACGGUGGCUCCAA
.............(.(((((((---.(((.(........((((((...................))))))(((((........)))))..).))).))))))).)... ( -27.61)
>DroVir_CAF1 5127 105 - 1
AUCAAUGCCACCUGUGCCGCCG---GUAAGCAUAACCAAGGCUAUUAAUUCAUUGGAUAAUCCGAUGGCGGAUGUGGUGCGCAGCAUAACCAUCGAUGGCGGCAGCAA
..............(((.((((---((.......)))...((((((...(((((((.....)))))))..((((..((((...))))...))))))))))))).))). ( -32.30)
>DroGri_CAF1 5601 108 - 1
AACAAUGCCACCAGUGCCGCCCGUCGUUAACAUCACCAAAGCCAUCAAUUCGUUGGAUAAUCCCAUGGCGGAUGUGGUGCGCAGCAUCACCAUCGAUGGUGGCAGCAA
.....(((((((.(..(((((((((((........((((.............))))........)))))))..))))..).....(((......)))))))))).... ( -34.01)
>DroMoj_CAF1 5183 105 - 1
AACACUGCCGCCAGUCCCAACG---GUUAACAUAACCAAAGCCAUUAAUUCACUGGACAAUCCCAUGGCAGAUAUGGUGCGCAGCAUUACGAUCGAUGGCGGAACUAA
.......((((((.((.....(---((((...)))))...((((.........(((......))))))).(((.((((((...))))))..)))))))))))...... ( -26.50)
>DroAna_CAF1 4877 105 - 1
GGGUCUGCCGCCCGUGCCUCCA---GUUACCAUGGCGAAGGCCAUUAACUCACUGGACAAUCCAAUGGCUGAUGUGGUUCGCAGCAUUACCAUUGACGGCGGUUCCAA
.((...((((((.((...((((---((....(((((....)))))......)))))).....((((((.((((((.(....).)))))))))))))))))))).)).. ( -43.20)
>DroPer_CAF1 4919 105 - 1
GGGUCUGCCACCAGUUCCGCCC---GUAACAAUGACCAAGGCCAUCAAUUCGCUGGACAACCCCAUGGCGGAUGUGGUGCGCAGCAUCACCAUCGAUGGCGGAUCCAA
((((((((((.(...(((((((---(.....(((.(....).))).....)).(((......))).)))))).(((((((...)))))))....).)))))))))).. ( -40.40)
>consensus
AACAAUGCCACCAGUGCCGCCG___GUUACCAUGACCAAGGCCAUUAAUUCACUGGACAAUCCCAUGGCGGAUGUGGUGCGCAGCAUCACCAUCGAUGGCGGCACCAA
...............((((((...................(((((...................))))).((((((((((...))))))).)))...))))))..... (-19.81 = -20.26 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:08 2006