Locus 2000

Sequence ID X_DroMel_CAF1
Location 5,500,636 – 5,500,727
Length 91
Max. P 0.979185
window3257

overview

Window 7

Location 5,500,636 – 5,500,727
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 71.76
Mean single sequence MFE -30.37
Consensus MFE -12.56
Energy contribution -13.04
Covariance contribution 0.48
Combinations/Pair 1.40
Mean z-score -2.40
Structure conservation index 0.41
SVM decision value 1.83
SVM RNA-class probability 0.979185
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5500636 91 + 22224390
GCUGUCCGUUCCGCUCGCCUUCGUUGCCGAUUUACUCGGCGAUGCUGGUGUGCAAAGGACACGCUUUCGAUUAAAUAAUCCACUUAAUUU---------A
(((((((.....((.((((..(((((((((.....)))))))))..)))).))...))))).))....((((....))))..........---------. ( -33.40)
>DroSec_CAF1 25193 91 + 1
GCUGUCCGUUCCACUCGCCUUCGUUGCCGAUUUAUUCGGCGAAGCUGGUGUGGAAAGGUCACGCUUUCGAUUAAUGAAUCCACUUACUUU---------A
((((.((.((((((..(((....(((((((.....)))))))....))))))))).)).)).))....((((....))))..........---------. ( -30.30)
>DroSim_CAF1 18648 91 + 1
GCUGUCCGUUCCACUCGCCUUCGUUGCCGAUUUAUUCGGCGAAGCUGGUGUGCAAAGGACACGCUUUCGAUUAAUGAAUCCACUUACUUU---------A
(((((((....(((..(((....(((((((.....)))))))....))))))....))))).))....((((....))))..........---------. ( -27.50)
>DroEre_CAF1 35977 96 + 1
GCUGUCCGUACCGCUCGCCUUUGUUGCCGAUUUAUUCGGCGAAGUUGCUGUGCGGAGGACAAGGUCUCGUCUGACUAAUCCACUUUCAUU----GUUACA
..(((((...((((.(((.....(((((((.....)))))))....)).).)))).))))).((((......))))..............----...... ( -31.20)
>DroYak_CAF1 27068 94 + 1
GCUGUCCGUACCGCUCGCCUUCGUUGCCGAUUUAUUCGGCGAUGUUGCUGUGCGAAGUGCGAGAUUUCGAUUUAAUAAUCCACAU--ACU----GUUCCA
(..(((((((((((.(((...(((((((((.....)))))))))..)).).)))..))))).)))..)((((....)))).....--...----...... ( -28.90)
>DroMoj_CAF1 33637 94 + 1
GCUGUCCGAGGCGUUCACCUUGGACGUGGUCUUGCUCGGCGAGGUGGCUGUA--AAUGCCAAAG----UUCUCAUCAGUCCACUUUAUUCGAAAGCUGUA
(((((((((((......))))))))((((.((.((...))((((((((....--...))))...----.))))...)).))))..........))).... ( -30.90)
>consensus
GCUGUCCGUUCCGCUCGCCUUCGUUGCCGAUUUAUUCGGCGAAGCUGCUGUGCAAAGGACAAGCUUUCGAUUAAUUAAUCCACUUACUUU_________A
..(((((....(((.........(((((((.....))))))).......)))....)))))....................................... (-12.56 = -13.04 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:53 2006