Locus 398

Sequence ID 3R_DroMel_CAF1
Location 1,482,754 – 1,482,848
Length 94
Max. P 0.574152
window654

overview

Window 4

Location 1,482,754 – 1,482,848
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -33.23
Consensus MFE -25.12
Energy contribution -26.07
Covariance contribution 0.95
Combinations/Pair 1.14
Mean z-score -1.49
Structure conservation index 0.76
SVM decision value 0.08
SVM RNA-class probability 0.574152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1482754 94 - 27905053
GCUGGAUGCUGAUCACGAUCAACUUGACGUGGCCAGUUGCAUUUCGUCAAGCAUCGCCAAAACGG------UUGGCGAUAAGUGCGAGGAGUGCCUGGCG
((..(..((((..((((.((.....))))))..)))).(((((((.((..((((((((((.....------))))))))..))..))))))))))..)). ( -37.90)
>DroSec_CAF1 1777 94 - 1
GUUGGAUGCUGAUCACGAUCAACUCGACGUGGCCAGUUGCAUUUCGUCAAGCAUCGCCAAAACUG------UUGGUGAUAAGUGCGAGGAGUGCCUGGCG
((..(..((((..((((.((.....))))))..)))).(((((((.((..((((((((((.....------))))))))..))..))))))))))..)). ( -34.10)
>DroSim_CAF1 1777 94 - 1
GUUGGAUGCUGAUCACGAUCAACUCGACGUGGCCAGUUGCAUUUCGUCAAGCAUCGCCAAAACUG------UUGGUGAUAAGUGCGAGGAGUGCCUGGCG
((..(..((((..((((.((.....))))))..)))).(((((((.((..((((((((((.....------))))))))..))..))))))))))..)). ( -34.10)
>DroEre_CAF1 2056 94 - 1
GCUGGACGACGAUCACGAUCACCUGGACGUGGCCAGUUGCAUUUCGUCAAGCAUCGCCAAAACGG------UUGGAGAUAAGUGCGCGGAGUGCCUGGCC
.(..(..((((....)).))..)..)....((((((..(((((((((((...(((.((((.....------)))).)))...)).))))))))))))))) ( -31.80)
>DroYak_CAF1 1798 88 - 1
GCUGGACGACGA------UCAUCUAGACGUGUCCAGUUGCAUUUUGUCAAACAUCGCCAAAACAG------UUGGCGAUAAGUGCGAGGAUUGCCUGGUA
(((((((.(((.------((.....))))))))))))(((((((........((((((((.....------)))))))))))))))(((....))).... ( -30.40)
>DroAna_CAF1 1693 100 - 1
CCUGAACGACGAUCACGAUCACCUGGACGUGGCCAGUUGCAUCUCGUCGAGCGUCGCCAAGGCAAAUGAAACUGGUGACAAUUGCGAUGCGUGCCUGGCC
........(((.(((........))).)))((((((..((((..(((((...(((((((.(..........)))))))).....))))).)))))))))) ( -31.10)
>consensus
GCUGGACGACGAUCACGAUCAACUCGACGUGGCCAGUUGCAUUUCGUCAAGCAUCGCCAAAACAG______UUGGUGAUAAGUGCGAGGAGUGCCUGGCG
.............((((.((.....))))))(((((..((.(((((.((...((((((((...........))))))))...))))))).))..))))). (-25.12 = -26.07 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:14 2006