Locus 3769

Sequence ID X_DroMel_CAF1
Location 9,992,609 – 9,992,699
Length 90
Max. P 0.603754
window6190

overview

Window 0

Location 9,992,609 – 9,992,699
Length 90
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 81.26
Mean single sequence MFE -28.34
Consensus MFE -15.96
Energy contribution -17.08
Covariance contribution 1.12
Combinations/Pair 1.14
Mean z-score -1.95
Structure conservation index 0.56
SVM decision value 0.14
SVM RNA-class probability 0.603754
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9992609 90 + 22224390
UCCUGGCAAAAGGAAAA-------AAA-AAUACACCGCCUGGCUAAAUUCCGCCGGCAAAAAAGGAGGUGUCCUCCUGCGGGAGGCAGUUCGUCCUGG
((((......))))...-------...-......(((((.(((........)))))).....((((.(((.(((((....)))))))...).)))))) ( -29.40)
>DroSec_CAF1 5496 96 + 1
UCCUGGCAAAAGGAAAAGAAAAAAAAAAGAAACACCGCCUGGCUAAAUUCCGCAGGCAA--AAGGAGGCGUCCUCCUGUGGGACGCAGUUCGUCCUGC
((((......))))......................(((((.(........))))))..--.((((((...))))))(..(((((.....)))))..) ( -30.00)
>DroSim_CAF1 5675 95 + 1
UCCUGGCAAAAGGAAAAGAAAAAAAAA-AAAACACCGCCUGGCUAAAUUCCGCAGGCAA--AAGGAGGCGUCCUCCUGUGGGACGCAGUUCGUCCUGC
((((......)))).............-........(((((.(........))))))..--.((((((...))))))(..(((((.....)))))..) ( -30.00)
>DroEre_CAF1 5352 82 + 1
UCCGGGCAAGGGGGAAAAAAA-------AAA----CGCCUGGCUUAAUUCCGCAGCCAA--AAGGAGACGUCCUCCGCUGGGAGGCAGUUCGUCC---
(((.(((..((((((......-------...----....(((((.........))))).--..(....).))))))))).)))(((.....))).--- ( -25.80)
>DroYak_CAF1 5550 88 + 1
UCCUGGCAAAAGGAAAAUAAA-------AAAACACCGCCAGGCUUAAUUCCGCAGCCAA---AGGAGGCGUCCUCCUAUGGGAGGCAGUUCGUCCUGG
((((......)))).......-------.........(((((...((((((....(((.---((((((...)))))).)))..)).))))...))))) ( -26.50)
>consensus
UCCUGGCAAAAGGAAAAGAAA___AAA_AAAACACCGCCUGGCUAAAUUCCGCAGGCAA__AAGGAGGCGUCCUCCUGUGGGAGGCAGUUCGUCCUGC
((((......))))......................(((((.(........)))))).....(((((((..(((((....)))))..)))..)))).. (-15.96 = -17.08 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:57 2006