Locus 3892

Sequence ID X_DroMel_CAF1
Location 10,394,165 – 10,394,255
Length 90
Max. P 0.702358
window6392

overview

Window 2

Location 10,394,165 – 10,394,255
Length 90
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 75.71
Mean single sequence MFE -20.86
Consensus MFE -7.56
Energy contribution -8.53
Covariance contribution 0.97
Combinations/Pair 1.14
Mean z-score -1.88
Structure conservation index 0.36
SVM decision value 0.35
SVM RNA-class probability 0.702358
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10394165 90 + 22224390
UAGGGGUUGG------CCAUUAAUGCCACCACCCCCCUUCAACCCCCCUCACCCCACACACCCCCGCCCCUGCGGCCGGU-GAAAACAAUUAAUUUG
..((((((((------(.......))))..))))).......................((((.((((....))))..)))-)............... ( -24.00)
>DroSec_CAF1 38166 87 + 1
UAGGGGUUGG------CCAUUAAUGCCCCCG---CCCUUCAGCCCCCUUCACCCCACACACCCCUGCCCCUGCGGCCGGU-GAAAACAAUUAAUUUG
..(((((.((------(.......)))...(---(......)).......)))))...((((.((((....))))..)))-)............... ( -20.60)
>DroEre_CAF1 42761 80 + 1
UAGGGGUUGG------CCAUUAAUGCCACCA----------CCCCCCUUUACCCCACCCACCCCCACCCCUGCGGCCGGU-GAAAACAAUUAAUUUG
..((((((((------(.......))))..)----------)))).........((((...((.((....)).))..)))-)............... ( -19.20)
>DroWil_CAF1 33272 80 + 1
--GGGGUUGGUUGGGCCCAUUAAUGUCGCAUGCUCCCU----CCCCCCUCCCCCCGCAAAU-----------UGCCCGGUAGAAAACAAUUAAUUUG
--((((..((..(((..(((.........)))..))).----))))))((..((.((....-----------.))..))..)).............. ( -16.10)
>DroYak_CAF1 37949 82 + 1
UAGGGGUUGG------CCAUUAAUGCCACCAC--------ACCCCCCUUCACCCCACUCACCCCCGCCCCUGCGGCCGGU-GAAAACAAUUAAUUUG
..((((((((------(.......))))....--------)))))............(((((.((((....))))..)))-)).............. ( -24.40)
>consensus
UAGGGGUUGG______CCAUUAAUGCCACCA___CCCU__ACCCCCCUUCACCCCACACACCCCCGCCCCUGCGGCCGGU_GAAAACAAUUAAUUUG
..(((((.((...................................))...)))))....(((.((((....))))..)))................. ( -7.56 =  -8.53 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:08 2006