Locus 1909

Sequence ID X_DroMel_CAF1
Location 5,283,115 – 5,283,235
Length 120
Max. P 0.602726
window3107

overview

Window 7

Location 5,283,115 – 5,283,235
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.03
Mean single sequence MFE -25.07
Consensus MFE -20.79
Energy contribution -21.35
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.54
Structure conservation index 0.83
SVM decision value 0.14
SVM RNA-class probability 0.602726
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5283115 120 - 22224390
CCAUGCUCAAUGGCAAUUUAAUGGGCACCGCCAGUUCGAAGAGUGAUUCUUUUCAAAAACAAUCGAGAAGCGAUUGACCAGCGCAAUAAAAGCCAUUAAAAAGAACAUUAAAAGCGAUUC
........((((((..((((.((.((...........((((((.....)))))).....((((((.....))))))....)).)).)))).))))))....................... ( -25.40)
>DroSec_CAF1 20023 119 - 1
CCAUGCUCAAUGGCAAUUUAAUGGGCAC-GCCAGUCCGAAGAGUGAUUCUUUUCAAAAACAAUCGAGAAGCGAUUGACCAGCGCAAUAAAAGCCAUUAAAAAGAACAUUAAAAGCGAUUC
........((((((..((((.((.((..-........((((((.....)))))).....((((((.....))))))....)).)).)))).))))))....................... ( -25.40)
>DroEre_CAF1 19780 115 - 1
CCUCGCCCGAUGGCAAUUUAAUGACC---UCCAGCCCGAAGAGUGAUUCUUUUCAAAAACAAUCGAGAAGCGAUUGACCAGCGCAAUAAAAGCCAUUAAAAAGAACAUUAAAAGCGAU--
..((((..((((....(((((((...---....((..((((((.....)))))).....((((((.....))))))....))((.......))))))))).....))))....)))).-- ( -23.90)
>DroYak_CAF1 16602 117 - 1
CCAUGCUCAAUGGCAAUUUAAUGGGC---UUCAGUUCGCAGAGUGAUUCUUUUCAAAAACAAUCAAGAAGCGAUUGACCAGCGCAAUAAAAGCCAUUAAAAAGAACAUUAAAAGCGAUGC
........((((((..((((.((.((---((((((.(((....(((((.(((....))).)))))....))))))))..))).)).)))).))))))........((((......)))). ( -25.60)
>consensus
CCAUGCUCAAUGGCAAUUUAAUGGGC___GCCAGUCCGAAGAGUGAUUCUUUUCAAAAACAAUCGAGAAGCGAUUGACCAGCGCAAUAAAAGCCAUUAAAAAGAACAUUAAAAGCGAUUC
........((((((..((((.((.((...........((((((.....)))))).....((((((.....))))))....)).)).)))).))))))....................... (-20.79 = -21.35 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:39 2006