Locus 334

Sequence ID 3R_DroMel_CAF1
Location 1,279,716 – 1,279,825
Length 109
Max. P 0.737567
window559

overview

Window 9

Location 1,279,716 – 1,279,825
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 82.39
Mean single sequence MFE -25.91
Consensus MFE -16.25
Energy contribution -19.49
Covariance contribution 3.24
Combinations/Pair 1.04
Mean z-score -2.02
Structure conservation index 0.63
SVM decision value 0.44
SVM RNA-class probability 0.737567
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1279716 109 - 27905053
AAGAACCAAAUUUGCCGAAAGUUCAGCCAUUAAUUCAUCCACUUUAGUUGGACUCGCAGAGAAUUUGUAUGGGGCAAAGUGCACUGAAAAGUGCACCGAGCACAUACUU
..........(((((....((((((((...................)))))))).)))))......(((((..((...(((((((....)))))))...)).))))).. ( -30.41)
>DroSec_CAF1 50215 109 - 1
AAGAACCAAAUUUGCCCAAAGUUCAGCCAUUAAUUCAUCCACUUUAGUUGGACUCGCAGAGAAUUUGUCUGGAGCAAAGUGCACUGAAAAGUGCACUGAGCACACACUU
.(((......(((((....((((((((...................)))))))).))))).......)))...((..((((((((....))))))))..))........ ( -29.83)
>DroSim_CAF1 47657 109 - 1
AAGAACCAAAUUUGCCCAAAGUUCAGCCAUUAAUUCAUCCACUUUAGUUGGACUCGCAGAGAAUUUGUCUGCAGCAAAGUGCACUGAAAAGUGCACUGAGCACACACUU
...................((((((((...................)))))))).(((((.......))))).((..((((((((....))))))))..))........ ( -30.11)
>DroEre_CAF1 49620 109 - 1
AAGAGACAAAUUUGCCCAAAGUUCAGCCAUUAAUUCAUCCACUUUAGUCGGACUCCAGCCGCAUUUGUCUGGCGCAAAGUUCACUGAAAAGUGCACUGAGCACACACUU
....................((((((..............(((((.(((((((.............)))))))..))))).((((....))))..))))))........ ( -24.02)
>DroYak_CAF1 66088 86 - 1
---------AUUUGA-CAAAGUUCAGCCAUUAAUUCAUCCACUUUGGUUGCACUCCAAAAAAAUUCG-CUGGGGC------------AAAGUGCACUGAACACACAUUU
---------......-....(((((((((...............))).(((((((((..........-.)))...------------..))))))))))))........ ( -15.16)
>consensus
AAGAACCAAAUUUGCCCAAAGUUCAGCCAUUAAUUCAUCCACUUUAGUUGGACUCGCAGAGAAUUUGUCUGGAGCAAAGUGCACUGAAAAGUGCACUGAGCACACACUU
......(((((((......((((((((...................))))))))......)))))))......((..((((((((....))))))))..))........ (-16.25 = -19.49 +   3.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:40 2006