Locus 4336

Sequence ID 3R_DroMel_CAF1
Location 11,457,306 – 11,457,399
Length 93
Max. P 0.681628
window7087

overview

Window 7

Location 11,457,306 – 11,457,399
Length 93
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 87.42
Mean single sequence MFE -36.17
Consensus MFE -29.31
Energy contribution -29.38
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.81
SVM decision value 0.31
SVM RNA-class probability 0.681628
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11457306 93 - 27905053
GCGGUCG-GGGGAGCUCUUCAAAGAGUUUGUCAAGCGGCAAAAGUCUGCGGCUAAUUAUGCGAUAUGCGAUGCAGGAG-UGGGGAUUCCCCUCC----C--------
(((((((-((.(((((((....))))))).)).(((.(((......))).))).......)))).)))......((((-.(((....)))))))----.-------- ( -34.10)
>DroSec_CAF1 189836 97 - 1
GCGGUCG-AGGGAGCUCUUCAAAGAGUUUGUCAAGCGGCAAAAGUCUGCGGCUAAUUAUGCGAUAUGCGAUGCAGGAG-UGGGGAUUCCCCUCCUUCCU--------
(((((((-...(((((((....)))))))....(((.(((......))).))).......)))).))).....(((((-.(((....))))))))....-------- ( -31.90)
>DroSim_CAF1 184920 97 - 1
GCGGUCG-GGGGAGCUCUUCAAAGAGUUUGUCAAGCGGCAAAAGUCUGCGGCUAAUUAUGCGAUAUGCGAUGCAGGAG-UGGGGAUUCCCCUCCAUCCU--------
(((((((-((.(((((((....))))))).)).(((.(((......))).))).......)))).)))......((((-.(((....))))))).....-------- ( -35.00)
>DroEre_CAF1 179035 100 - 1
GCGGUCGCGGGAAGCUCUUCAAAGAGUUUGUCAAGCGGCAAAAGUCUGCGGCUAAUUAUG-------CGAUGCAGGAGAUGGGGAUGCCCCUCCUUCCUGCUCCCGG
.(((((((((.(((((((....))))))).)).(((.(((......))).)))......)-------))).(((((((..((((....))))..)))))))..))). ( -43.70)
>consensus
GCGGUCG_GGGGAGCUCUUCAAAGAGUUUGUCAAGCGGCAAAAGUCUGCGGCUAAUUAUGCGAUAUGCGAUGCAGGAG_UGGGGAUUCCCCUCCUUCCU________
(((.(((.((.(((((((....))))))).)).(((.(((......))).)))..............)))))).((((..(((....)))))))............. (-29.31 = -29.38 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:34 2006