Locus 5904

Sequence ID X_DroMel_CAF1
Location 15,228,305 – 15,228,399
Length 94
Max. P 0.708529
window9584

overview

Window 4

Location 15,228,305 – 15,228,399
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 79.86
Mean single sequence MFE -37.25
Consensus MFE -21.01
Energy contribution -22.73
Covariance contribution 1.73
Combinations/Pair 1.21
Mean z-score -2.00
Structure conservation index 0.56
SVM decision value 0.37
SVM RNA-class probability 0.708529
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15228305 94 + 22224390
GCCAUUUGGGCCAGGAUGCGAUGCACCU---GCCUGGCUGGCAGCGAAAUGCGAAUCAAUUUUGCUGCUAAUGUUGGGCGGUGUGUUGACCUAAGUG
(((.....))).(((...(((((((((.---(((..((((((((((((((........))))))))))))..))..)))))))))))).)))..... ( -45.00)
>DroVir_CAF1 65020 85 + 1
ACCUGUC---GCAGCAGCUGUCGCACCG---GCUGCUGCUGCUCCAA------AGUCCACCUUGCUGCUGAUGUUGGGCGGCGUGUGUGCCUAGGGG
.((((..---((((((((.((((...))---)).)))))))).....------.(..(((..(((((((.......))))))).)))..).)))).. ( -37.50)
>DroSec_CAF1 48744 94 + 1
ACCAUUUGUACCAGGAUGCGAUGCACCU---GCCUGGCUGGCAGCGAAAUGCGAAUCUAUUUUGCUGCUGAUGUUGGGCGGCGUGUUGACCUAAGUG
............(((...((((((.((.---(((..((.((((((((((((......))))))))))))...))..))))).)))))).)))..... ( -37.40)
>DroSim_CAF1 58038 94 + 1
ACCAUUUGUACCAGGAUGCGAUGCACCU---GCCUGGCUGGCAGCGAAAUGCGAAUCUAUUUUGCUGCUGAUGUUGGGCGGCGUGUUGACCUAAGUG
............(((...((((((.((.---(((..((.((((((((((((......))))))))))))...))..))))).)))))).)))..... ( -37.40)
>DroEre_CAF1 49960 97 + 1
ACCAUUUGAGCCAGGAUGCGAUCCUCCUGCUGCCUGGCCGGCACCGAAAUGCGAGUCUAUCUUGCUGCUGAUGUUGGGCGGCGUGUUGACCUGAGUG
.........((((((...((((.....(((((((..(((((((.......(((((.....))))))))))..))..))))))).)))).)))).)). ( -33.31)
>DroYak_CAF1 48614 94 + 1
ACCAUUCGAGCCGGGAUGCGAUCCACCC---GCCUGGCCGGCACCGAAAUGCGAAUCUAUUUUGCUGCUGAUGUUGGGCGGCGUGUUGACCUAAGUG
.((((((......))))).)...(((((---(((..(((((((.(((((((......))))))).)))))..))..))))).)))............ ( -32.90)
>consensus
ACCAUUUGAGCCAGGAUGCGAUGCACCU___GCCUGGCCGGCACCGAAAUGCGAAUCUAUUUUGCUGCUGAUGUUGGGCGGCGUGUUGACCUAAGUG
............(((...((((((.((....(((..(((((((.(((((((......))))))).)))))..))..))))).)))))).)))..... (-21.01 = -22.73 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:15 2006