Locus 1040

Sequence ID 2R_DroMel_CAF1
Location 4,270,720 – 4,270,835
Length 115
Max. P 0.512863
window1842

overview

Window 2

Location 4,270,720 – 4,270,835
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 93.04
Mean single sequence MFE -22.63
Consensus MFE -20.34
Energy contribution -20.23
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -1.63
Structure conservation index 0.90
SVM decision value -0.04
SVM RNA-class probability 0.512863
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4270720 115 + 20766785
UUGCCAAUACGCAUUUGCGUAUGUAUAGAUAUCUUCUUACAAAGGCAAAGAUGUUGACCUGACACCGGUUAUUUAAACACACAGUGAAUAAAUUAAAAUUAUAGACUAUGAAAUC
(((((.((((((....))))))(((.(((.....))))))...)))))......(((((.......)))))........((.(((..((((.......))))..))).))..... ( -22.20)
>DroSec_CAF1 32098 115 + 1
UUGCCAAUACGCAUUUGUGUAUGUAUAGACAUCUUCUUACAAAGGCAAAGGUGUUGACCUGACACUGCCGAUUAAAACACACAGCGAAUAAAUUAAAAUUAUAGACAAUGAAAUU
.........(((...(((((.((((.(((.....)))))))..((((...(((((.....))))))))).......)))))..)))............................. ( -21.20)
>DroSim_CAF1 36559 115 + 1
UUGCCAAUACGCAUUUGUGUAUGUAUAGACAUCUUCUUACAAAGGCAAAGGUGUUGACCUGACACCGCCGAUUUAAACACACAGUGAAUAAAUUAAAAUUAUAGACAAUAAAAUC
(((((.((((((....))))))(((.(((.....))))))...))))).((((((.....))))))...((((((..(((...)))..))))))..................... ( -24.50)
>consensus
UUGCCAAUACGCAUUUGUGUAUGUAUAGACAUCUUCUUACAAAGGCAAAGGUGUUGACCUGACACCGCCGAUUUAAACACACAGUGAAUAAAUUAAAAUUAUAGACAAUGAAAUC
(((((.((((((....))))))(((.(((.....))))))...))))).((((((.....))))))................................................. (-20.34 = -20.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:55 2006