Locus 8610

Sequence ID 3R_DroMel_CAF1
Location 23,005,965 – 23,006,069
Length 104
Max. P 0.749233
window13841

overview

Window 1

Location 23,005,965 – 23,006,069
Length 104
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 94.55
Mean single sequence MFE -24.15
Consensus MFE -21.29
Energy contribution -21.10
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.88
SVM decision value 0.47
SVM RNA-class probability 0.749233
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23005965 104 + 27905053
UUAUAAUUAUUGUAUAUUGCAAAAUAAUAAUAGCCAUUUAUAUGGCAGGCCUAAGCCAUUGGGUUUCGAAGGUUAUCUGCAUCUUGGGAAAACAUUCACCCAUU
.......((((((.((((....))))))))))(((((....))))).(((....)))..(((((...(((.(((.(((........))).))).)))))))).. ( -23.70)
>DroSec_CAF1 8594 104 + 1
UUCUAAUUAUUGUAUAUUGCAAAAUAAUAAUAGCCAUUUAUAUGGCAGGCCUAAGCCAUUGGGUUUCGAAGGUUAUCUGCAUCUUGGGAAAACAUUCACCCAUU
.......((((((.((((....))))))))))(((((....))))).(((....)))..(((((...(((.(((.(((........))).))).)))))))).. ( -23.70)
>DroEre_CAF1 12227 104 + 1
UUCUAAUUAUUGUAUAUUGCUAAAUAAUAUUAGCCAUUUGUAUGGCAGGCCCAAGCCUUUGGGUUUCGAAGGUUAUCUGCAUCUUGGGAAAACAUUCCCCCAUU
...........(((((..(((((......)))))....))))).(((((....((((((((.....)))))))).))))).....(((((....)))))..... ( -24.30)
>DroYak_CAF1 12461 104 + 1
CUCUAAUUGCGGUAUAUUGCUAAAUAAUAAUAGCCAUUUAUAUGGCAGGCCUAAGCCAUUGGGUUUCGAAGGUUAUCUGCAUCUUGGGAAAACAUUCACCCAUU
.......(((.(((((..((((........))))....))))).)))(((....)))..(((((...(((.(((.(((........))).))).)))))))).. ( -24.90)
>consensus
UUCUAAUUAUUGUAUAUUGCAAAAUAAUAAUAGCCAUUUAUAUGGCAGGCCUAAGCCAUUGGGUUUCGAAGGUUAUCUGCAUCUUGGGAAAACAUUCACCCAUU
.................(((...(((((....(((((....)))))((((((((....)))))))).....)))))..)))...((((..........)))).. (-21.29 = -21.10 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:29 2006