Locus 460

Sequence ID 3R_DroMel_CAF1
Location 1,739,862 – 1,739,976
Length 114
Max. P 0.924665
window748

overview

Window 8

Location 1,739,862 – 1,739,976
Length 114
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.06
Mean single sequence MFE -22.48
Consensus MFE -12.80
Energy contribution -13.80
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -2.24
Structure conservation index 0.57
SVM decision value 1.16
SVM RNA-class probability 0.924665
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1739862 114 + 27905053
AAGUUGAAUGGGCCGGGGAA--UGCAUUUUUUCCGGAUGCUGCAGAAAUAUCAAGCAAUAAGUGCAAAG---AAAUGGCAAAAAAAAAAAAAAAACGUCAAAAAGCAGACAGCACAAAU
..((((......((((..((--......))..))))...((((...........(((.....)))....---...((((.................))))....)))).))))...... ( -23.93)
>DroPse_CAF1 42347 98 + 1
CGACUGAAUAGGCCAAGGAGCCUUCUUUUUUUUGCGCUUCAGCACAAAAAUCAAGAAA----------AAUAAUAUACAAAA---------AAGUAACCG--AAGCAGACAACGUGAAU
...(((....(((......)))(((((.((((((.((....)).))))))..))))).----------..............---------.........--...)))........... ( -15.30)
>DroSec_CAF1 48902 106 + 1
AAGUUGAAUGGGCCGGGGAA--UGCAUUUUUUCCGGAUGCUGCAGAAAUAUCAAGCAAUAAGUGCAAAG---AAAUGGCAAAA--------AAAACGUCGAAAAGCAGACAGCACAAAU
..((((......((((..((--......))..))))...((((...........(((.....)))....---...((((....--------.....))))....)))).))))...... ( -23.90)
>DroSim_CAF1 50104 106 + 1
AAGUUGAAUGGGCCGGGGAA--UGCAUUUUUUCCGGAUGCUGCAGAAAUAUCAAGCAAUAAGUGCAAAG---AAAUGGCAAAA--------AAAACGUCGAAAAGCAGACAGCACAAAU
..((((......((((..((--......))..))))...((((...........(((.....)))....---...((((....--------.....))))....)))).))))...... ( -23.90)
>DroEre_CAF1 47778 105 + 1
AAGCUGAAUGGGCCGGGGAA--UACAUUUUUUCCGGAUGCUGCAGAAAUAUCAAGCAAUAAGUGCAAAG---AAAUGGUAAA---------AAAAAGUCGAAGAGCAGACAGCAGAAAU
..((((......((((..((--......))..))))...((((.((....))..(((.....)))....---..........---------.............)))).))))...... ( -24.20)
>DroYak_CAF1 49373 108 + 1
AAGUUGAAUGGGCCAGGGAA--UGCAUUUUUUCCGGAUGUUGCAGAAACAUCAAGCAAUAAGUGCAAAAAAAAAAUGCUAAA---------AAGAAGUCCAAAAGCAGACAGCACAAAU
..(((...(((((.......--.(((((((((...((((((.....))))))..(((.....)))....)))))))))....---------.....)))))..)))............. ( -23.63)
>consensus
AAGUUGAAUGGGCCGGGGAA__UGCAUUUUUUCCGGAUGCUGCAGAAAUAUCAAGCAAUAAGUGCAAAG___AAAUGGCAAA_________AAAAAGUCGAAAAGCAGACAGCACAAAU
..((((......((((..((........))..))))...((((.((....))..(((.....))).......................................)))).))))...... (-12.80 = -13.80 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:46 2006