Locus 1323

Sequence ID 2R_DroMel_CAF1
Location 5,132,021 – 5,132,127
Length 106
Max. P 0.521472
window2293

overview

Window 3

Location 5,132,021 – 5,132,127
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 80.68
Mean single sequence MFE -29.57
Consensus MFE -17.76
Energy contribution -19.58
Covariance contribution 1.81
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.60
SVM decision value -0.02
SVM RNA-class probability 0.521472
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5132021 106 - 20766785
AAGCAAGGGAAAACCACGUAAAAUACAAGCGGCCAGUUUGUGUAUAGCCCGUUCGGGCUAUUAUUUCAAGACUCACCCGGCUGGCUGGUUGUCCUGCUCUUAAGCU
.(((..((.....))..(((....((((.(((((((((.(((.(((((((....)))))))............)))..))))))))).))))..)))......))) ( -35.92)
>DroSec_CAF1 8063 106 - 1
AAGCCAGGGAAAACCACGUAAAAUACAAGCGGCCAGUUUGUGUAUAGCCCGUUCGGGCUAUUAUUUCAAGACUCAGCCAACUGGCUGGCUGUCCUGCUCUUAAGCU
.(((.(((((((..........((((((((.....))))))))(((((((....)))))))..)))).((.(.(((((....))))))))..))))))........ ( -35.10)
>DroEre_CAF1 7020 86 - 1
AAGCCCGAGAAAACCACGUAAAAUACAAGCGGACAGU-----------CC----GGGCUAU-AUUAUAAGACUCAGCCGGU----UGGCUGUCCUGCUCUUAAGCU
.(((..((((.......(((...)))..(((((((((-----------((----.((((..-............)))).).----.)))))))).))))))..))) ( -24.64)
>DroYak_CAF1 7894 91 - 1
AAGCCAGAGAAAACCACGUAAAAUACAAGCGGACUGU-----------CCGUUCGGGCUAUUAUUUCAAGACUCAGCCGUG----UGGCUGUUCUGCUCUUAAGCU
.(((..((((.......(((...)))..(((((..((-----------((....))))...............(((((...----.))))).)))))))))..))) ( -22.60)
>consensus
AAGCCAGAGAAAACCACGUAAAAUACAAGCGGACAGU___________CCGUUCGGGCUAUUAUUUCAAGACUCAGCCGGC____UGGCUGUCCUGCUCUUAAGCU
.(((..((((.......(((...)))..((((............((((((....)))))).............((((((......))))))..))))))))..))) (-17.76 = -19.58 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:11 2006