Locus 4019

Sequence ID 3R_DroMel_CAF1
Location 10,972,697 – 10,972,788
Length 91
Max. P 0.878564
window6437

overview

Window 7

Location 10,972,697 – 10,972,788
Length 91
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 87.46
Mean single sequence MFE -16.15
Consensus MFE -12.10
Energy contribution -12.17
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -2.15
Structure conservation index 0.75
SVM decision value 0.90
SVM RNA-class probability 0.878564
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10972697 91 - 27905053
UGGUACAACAAA-AAAACACGAACA-AACAAUAACAAAAUGGGGCGCAAGAA-----UAAUACCAAUAAUGGUGAACAAUUUUUAGUGCUCUCGCUCU
............-............-..............((((((((((((-----(..(((((....)))))....)))))).)))))))...... ( -14.80)
>DroSec_CAF1 38460 90 - 1
GCGUACAACAAA--AAACAUGAACA-AACAAUAACAAAAUGGGGCGCAAGAA-----UAAUACCAAUAAUGGUGAACAAUUUUUAGUGCUCUCGCUCU
(((.........--...(((.....-............)))(((((((((((-----(..(((((....)))))....)))))).)))))).)))... ( -16.53)
>DroSim_CAF1 47482 90 - 1
GCGUACAACAAC--AAACAUGAACA-AACAAUAACAAAAUGGGGCGCAAGAA-----UAACACCAAUAAUGGUGAACAAUUUUUAGUGCUCACGCUCU
((((........--...(((.....-............)))(((((((((((-----(..(((((....)))))....)))))).))))))))))... ( -20.83)
>DroYak_CAF1 48205 98 - 1
UUCUAAAACAACAAAAAUAUGAACAAAACAAUAACAAAAAGGGGCGCAAGAAGCAAACUAUACCAAUAAUGGUGAACAAUUUUUAAUGCUCUCCCUCU
.......................................(((((.(((..(((.......(((((....))))).......)))..))).).)))).. ( -12.44)
>consensus
GCGUACAACAAA__AAACAUGAACA_AACAAUAACAAAAUGGGGCGCAAGAA_____UAAUACCAAUAAUGGUGAACAAUUUUUAGUGCUCUCGCUCU
.........................................((((((.((((........(((((....)))))......)))).))))))....... (-12.10 = -12.17 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:58 2006