Locus 1459

Sequence ID 3R_DroMel_CAF1
Location 4,199,247 – 4,199,353
Length 106
Max. P 0.671229
window2426

overview

Window 6

Location 4,199,247 – 4,199,353
Length 106
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 87.74
Mean single sequence MFE -25.67
Consensus MFE -22.24
Energy contribution -22.28
Covariance contribution 0.04
Combinations/Pair 1.10
Mean z-score -1.46
Structure conservation index 0.87
SVM decision value 0.29
SVM RNA-class probability 0.671229
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4199247 106 - 27905053
CCCGGUCUCCAGAGACAGACUACAGAUUAUUCCAUACUUCUCUCCACCCCCAAAAGAUUUCUGGAGUCUGGAAUCUCUGGCUGCGCCGCAAAUUCCGGU-UCGAGCC
.((((...(((((((((((((.((((.................................)))).))))))...))))))).(((...)))....)))).-....... ( -27.11)
>DroSec_CAF1 10639 98 - 1
CCCGGUCUCCAGAG----ACUACAGAUUAUUCCAU---UCUCUACCCC-CCCAACGAUUUCUGGAGUCUGGAAUCUCUGGCUGCGCCGCAAAUUCCGGU-UCGAGCC
.((((.((((((((----(................---..........-........))))))))).)))).......(((((.((((.......))))-.).)))) ( -26.48)
>DroSim_CAF1 10829 102 - 1
CCCGGUCUCCAGAG----ACUACAGAUUAUUCCAUACUUCUCUACCCCUCCCGACAAUUUCUGGAGUCUGGAAUCUCUGGCUGCGCCGCAAAUUCCGGU-UCGAGCC
.((((.((((((((----(......................................))))))))).)))).......(((((.((((.......))))-.).)))) ( -26.36)
>DroEre_CAF1 11386 95 - 1
CC--GUCUCCAGAG----ACUACAGAUUAUUCCAUACUUU---CUCCC--CCCAAGAUUUCUGGAGUCUGGAAUCUCCGGCUGCGCCGCAAAUUCUGGU-UCGAGCC
.(--(...((((((----....(((((...((((.....(---((...--....)))....))))))))).......((((...))))....)))))).-.)).... ( -22.10)
>DroYak_CAF1 11010 101 - 1
CCCAGUCUCCAGAG----ACUACAGAUUAUUCCAUACUUUUCUCGCCC--CCCAAGAUUUCUGGAGUCUGGAAUCUCUGGCUACGCCGCAAAUUCUGGUUUCGAGCC
.((((.((((((((----(.....((....))........(((.(...--..).)))))))))))).)))).......((((..((((.......))))....)))) ( -26.30)
>consensus
CCCGGUCUCCAGAG____ACUACAGAUUAUUCCAUACUUCUCUCCCCC_CCCAAAGAUUUCUGGAGUCUGGAAUCUCUGGCUGCGCCGCAAAUUCCGGU_UCGAGCC
.((((.((((((((............................................)))))))).)))).......((((..((((.......))))....)))) (-22.24 = -22.28 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:05 2006