Locus 3771

Sequence ID 2R_DroMel_CAF1
Location 12,477,685 – 12,477,790
Length 105
Max. P 0.802807
window6109

overview

Window 9

Location 12,477,685 – 12,477,790
Length 105
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 79.82
Mean single sequence MFE -22.93
Consensus MFE -9.93
Energy contribution -11.13
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.43
SVM decision value 0.62
SVM RNA-class probability 0.802807
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12477685 105 + 20766785
AAAAACUUUGCAUUUUUGGCAGGUCAUGAAAUUCGCAACCUACGCGAAACGAAUUUGGGCAAAAAAAA-----AGCGGUCAUAUCU-----CGCCAAACAAAUCAAUUGCAACAG
.......(((((..((((((((((.((((..(((((.......))))).((..(((.........)))-----..)).))))))))-----.)))))).........)))))... ( -20.90)
>DroSec_CAF1 7093 110 + 1
AAAAACUUUGCAUUUUUGGCAGGUCAUGAAAUUCGCAACCUACGCGAAUCGAAUUUGAACAAAAAAAAAAGAAAGCGGCCAUAUCU-----UGCCAAACAAAUCAAUUGCAACAG
.......(((((..(((((((((..(((..((((((.......))))))((..(((..............)))..))..)))..))-----))))))).........)))))... ( -21.64)
>DroEre_CAF1 7080 105 + 1
AAAAACUUUGCAUUUUUGGCAGGUCAUGAAA-UCGCAACCUACGCGAAUCGUAUCUGGCAAAAAAAAAA-AUAAGCG---GUAUCU-----UGCCAAACAAAUCAAUUGCAACAG
.......(((((((((((.(((((.((((..-((((.......)))).))))))))).)))))).....-......(---((....-----.)))............)))))... ( -25.20)
>DroYak_CAF1 7002 103 + 1
AAAAACUUUGCAUUUUUGGCAGGUCAUGAAAUUCGCAACCUACGCGAAUCGUAUCUGGCCAAAUAAAAA----GGCG---AUAUCU-----UGGCAAACAAAUCAAUUGCAACAG
.....((((.....((((((((((.((((..(((((.......))))))))))))).))))))...)))----)(((---((...(-----((.....)))....)))))..... ( -24.90)
>DroAna_CAF1 8339 100 + 1
GACAAGUUGGCAUUUUUGGCAGGUCAUGAAAUUCGUAACCUAUAC-----UUAUCUGGCUAAAAUACGA-G--------UAUAUCUCUUUUUGCC-AAUAAAUCCAUUGCAACAC
.....(((((((.(((((((((((.(((.....))).))))...(-----......))))))))...((-(--------.....)))....))))-)))................ ( -22.00)
>consensus
AAAAACUUUGCAUUUUUGGCAGGUCAUGAAAUUCGCAACCUACGCGAAUCGUAUCUGGCCAAAAAAAAA____AGCG___AUAUCU_____UGCCAAACAAAUCAAUUGCAACAG
.......(((((..((((((((((..((.....))..)))).(((.............................)))...............)))))).........)))))... ( -9.93 = -11.13 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:45 2006