Locus 5641

Sequence ID 2R_DroMel_CAF1
Location 17,944,527 – 17,944,618
Length 91
Max. P 0.593128
window9043

overview

Window 3

Location 17,944,527 – 17,944,618
Length 91
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.49
Mean single sequence MFE -29.64
Consensus MFE -12.28
Energy contribution -11.36
Covariance contribution -0.92
Combinations/Pair 1.44
Mean z-score -1.90
Structure conservation index 0.41
SVM decision value 0.12
SVM RNA-class probability 0.593128
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17944527 91 - 20766785
GUCUGGCUGGGUCUG----CUGGC--------------------GGUCGUGCUCGGGCUGUCAGC----GAAAUGAUUUAUUUUUGUUAUUAAAUUUUGGCUCGGCAUUUGAAUGCGGA-
.....((((((((((----(((((--------------------((((.......))))))))))----).((((((........)))))).......)))))))).............- ( -30.80)
>DroVir_CAF1 2941 93 - 1
GCUGGGCUGUGUUUG------GGA--------------------GGGCGUGCUUUCGCUGUCAGCUCUGGAAAUGAUUUAUAUUUGUUAUUAAAUUU-GCAGUAGCAUUUAAAUACUGAA
........(((((((------(((--------------------.((((......)))).)).((((((.((((.....(((.....)))...))))-.))).)))..)))))))).... ( -22.60)
>DroSec_CAF1 1901 91 - 1
GUCUGGCUGGGUCUG----CUGGC--------------------GGUCGUGCUCGGGCUGUCAGC----GAAAUGAUUUAUUUUUGUUAUUAAAUUUUGGCUCGGCAUUUGAAUGCGGA-
.....((((((((((----(((((--------------------((((.......))))))))))----).((((((........)))))).......)))))))).............- ( -30.80)
>DroEre_CAF1 6672 91 - 1
GUCUGGGUGGGUCUG----CUGGC--------------------GGUCGUGCUCGAGCUGUCAGC----GAAAUGAUUUAUUUUUGUUAUUAAAUUUUGGCUCGGCAUUUGAAUGCGGA-
.(((...((((((((----(((((--------------------(((((....))).))))))))----).((((((........)))))).......))))))((((....)))))))- ( -26.60)
>DroYak_CAF1 6488 115 - 1
GGGAGGUUGGGUUUGGGUGCGGGCUUGGGUGGGUCUGCUCUGGCGGUCGUGCUUGAGCUGUCAGC----GAAAUGAUUUAUUUUUGUUAUUAAAUUUUGGCUCGGCAUUUGAAUGCGGA-
......(((.(((..(((((.((((..((((.(.((((....)))).).))))..))))(((((.----..((((((........)))))).....)))))...)))))..))).))).- ( -37.40)
>consensus
GUCUGGCUGGGUCUG____CUGGC____________________GGUCGUGCUCGAGCUGUCAGC____GAAAUGAUUUAUUUUUGUUAUUAAAUUUUGGCUCGGCAUUUGAAUGCGGA_
.....((((((((...............................(.(((....))).).............((((((........)))))).......)))))))).............. (-12.28 = -11.36 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:46 2006