Locus 9724

Sequence ID 3R_DroMel_CAF1
Location 25,731,672 – 25,731,776
Length 104
Max. P 0.784729
window15534

overview

Window 4

Location 25,731,672 – 25,731,776
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.44
Mean single sequence MFE -34.08
Consensus MFE -20.06
Energy contribution -21.03
Covariance contribution 0.97
Combinations/Pair 1.09
Mean z-score -1.96
Structure conservation index 0.59
SVM decision value 0.57
SVM RNA-class probability 0.784729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25731672 104 - 27905053
GACACAAUGGUGGGGAAGACGUAGUCCAGAAGUCCCG---CCGAGCUGUGGGCGGCCAUAAGGGCCACCAGGGCAGUGAAAAGUAGCUGUGA---GAAA----------CGAACGGGUCA
..((((.((((((((..(((...)))......)))))---))).(((.(((..((((.....)))).))).))).............)))).---((..----------(....)..)). ( -36.30)
>DroSec_CAF1 26966 101 - 1
GACACAAUGGUGGGGAAGAUGUAGUCCAGAAGUCCCG---CCGAGCUGUGGGCGGCCAUAAGGGCCACCAGGGCAGUGAAAAGUAGCUGUGG---GAAA----------AGAAUG---CA
..((((.((((((((....((.....))....)))))---)))...)))).((((((.....)))).(((.((((.(....).).))).)))---....----------.....)---). ( -35.90)
>DroSim_CAF1 27459 101 - 1
GACACAAUGGUGGGGAAGACGAAGUCCAGAAGUCCCG---CCGAGCUGUGGGCGGCCAUUAGGGCCACCAGGGCAGUGAAAAGUAGCUGUGG---GAAA----------AGAAUG---CA
..((((.((((((((..(((...)))......)))))---)))...)))).((((((.....)))).(((.((((.(....).).))).)))---....----------.....)---). ( -34.90)
>DroEre_CAF1 28213 101 - 1
GACAUAAUGGUGGGGAAGAUGUAGUCCAGGAAUCCCG---CCGAGCUGUGGGCGGCCAUAAGGGCCACCAGGGCAGUGAAAAGUAGCUGCAA---UAGA----------CGAUUA---GA
.......((((((((....((.....))....)))))---))).(((((.((.((((.....)))).))...(((((........))))).)---))).----------).....---.. ( -32.30)
>DroYak_CAF1 28007 104 - 1
GUCAUUAAGGUGGGAAAGAUGUAGUCCAGGAGUCCCGCAGCCGAGCUCUGGGCGGCCAGGAGAGCCACCAGGGCAGUGAAAAGUAGCUGUAA---GCAA----------GGAUUG---GA
.........((((((....((.....))....))))))..(((((((((((..((((....).))).)))))))...........((.....---))..----------...)))---). ( -33.20)
>DroAna_CAF1 30016 114 - 1
GUCAUGAUAGUGGGAAAGAUGUAAUCCAGCAGGCCAG---CAGAGCUGUUGGCGGCCAUGACGGCCAAUAAGGCAGUGAAGAGUAGCUAUAAAGGGAAAUAAGCAUCAGAGGAUG---UA
((((((......(((.........))).((..(((((---((....))))))).)))))))).(((.....)))(((........)))..............(((((....))))---). ( -31.90)
>consensus
GACACAAUGGUGGGGAAGAUGUAGUCCAGAAGUCCCG___CCGAGCUGUGGGCGGCCAUAAGGGCCACCAGGGCAGUGAAAAGUAGCUGUAA___GAAA__________AGAAUG___CA
..(((...(((((((....((.....))....)))))...))..(((.(((..((((.....)))).))).))).))).......................................... (-20.06 = -21.03 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:43 2006