Locus 1834

Sequence ID 3R_DroMel_CAF1
Location 5,247,910 – 5,248,007
Length 97
Max. P 0.613981
window3016

overview

Window 6

Location 5,247,910 – 5,248,007
Length 97
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -20.78
Consensus MFE -13.12
Energy contribution -12.92
Covariance contribution -0.20
Combinations/Pair 1.38
Mean z-score -1.79
Structure conservation index 0.63
SVM decision value 0.16
SVM RNA-class probability 0.613981
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5247910 97 + 27905053
GACUAGGCAGUAAUUGCCGUCUCAGUUAAUUGGCUACAUCAAUUGAAAGCCAUUGGAGGUAAGCUCGCAGUAAGAAAAA---AAUAAAUGAAAACAACAA
(((..(((((...))))))))(((.(((...((((...((....)).))))(((((((.....))).))))........---..))).)))......... ( -17.00)
>DroSec_CAF1 21783 100 + 1
GACUAGGCGGUAAUUGCCGUCUCAGUUAAUUGGCUGCAUCAAUUGAAAGCCAUUGGAGGUAAGCCCGCAGUAAAAAAAAAGAAAGAAAUGAAAACAACGA
(((((((((((....))))))).)))).....(((((.(((((.(....).))))).((....)).)))))............................. ( -22.30)
>DroSim_CAF1 21923 96 + 1
GACUAGGCGGUAAUUGCCGUCUCAGUUAAUUGGCUGCAUCAAUUGAAAGCCAUUGGAGGUAAGCUCGCAGUAAAAAAAAA----GAAAUGAAAACAACAA
(((((((((((....))))))).))))....((((...((....)).))))(((((((.....))).)))).........----................ ( -23.00)
>DroYak_CAF1 21952 89 + 1
GACUAGGCGGUAAUUGCCGCCUCAAUUAAUUGGCUGCAUCAAUUGAAAGCCAUUGGAGGUGAGCCCGCAGUAUAAAA----------AUG-AAACAACAA
......((((.....((((((((.......(((((...((....)).)))))...)))))).)))))).........----------...-......... ( -24.50)
>DroAna_CAF1 20844 94 + 1
U----GUUUGUAAUUGCAGUCACAGUUAAUUGGCUGCAUCAAUUGAAUGUUAUUAGAGGUAACGCCGCAACAAAAAACAA--AAACAAUAAAAGCAAAAA
.----.(((((...((((((((........))))))))....(((..((((((.....))))))...)))..........--...........))))).. ( -17.10)
>consensus
GACUAGGCGGUAAUUGCCGUCUCAGUUAAUUGGCUGCAUCAAUUGAAAGCCAUUGGAGGUAAGCCCGCAGUAAAAAAAAA__AAGAAAUGAAAACAACAA
.....((((((....))))))...........(((((.((....))..(((......)))......)))))............................. (-13.12 = -12.92 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:38 2006