Locus 4002

Sequence ID 3R_DroMel_CAF1
Location 10,903,214 – 10,903,319
Length 105
Max. P 0.825327
window6416

overview

Window 6

Location 10,903,214 – 10,903,319
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 74.67
Mean single sequence MFE -20.02
Consensus MFE -9.14
Energy contribution -9.95
Covariance contribution 0.81
Combinations/Pair 1.20
Mean z-score -2.43
Structure conservation index 0.46
SVM decision value 0.70
SVM RNA-class probability 0.825327
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10903214 105 + 27905053
-----------AGAACUCAACACUUGCCAAUAGUGCUAUUUUGUACCACUCAAAAGGGUAAACUACAGCGUUUAUUCUUUU-GUUUGUUAUUUAUAUUCUCCUUUAAGCAAAC---AUUU
-----------............((((.....((((......))))((..(((((((((((((......))))))))))))-)..))....................))))..---.... ( -20.30)
>DroSec_CAF1 174132 119 + 1
GAUACAACAACACAACUCAACACUUGCCAAUAGUGUUAUUUUGUACCACUCAAAAGGGUAAACUACAACGUUUAUUCUUUU-GUUUGUUAUUUAUAUUCUCCUUUUAGCAAACAAAAUUU
...........((((...((((((.......))))))...)))).......((((((((((((......))))))))))))-((((((((...............))))))))....... ( -23.06)
>DroSim_CAF1 176898 86 + 1
-----------AGAACUCAACACUUGCCAAUAGUGUUAUUUUGUACCACUCAAAAGGGUAAACUACAACGUUUAUUCUUUU-GUUUGUUAUUUAUAUU----------------------
-----------.......((((((.......)))))).....(((.((..(((((((((((((......))))))))))))-)..)).))).......---------------------- ( -19.20)
>DroEre_CAF1 171651 106 + 1
-----------AGAAUUCAACACUUGCCAAUGGUGCUAUUUUGUACCACUUAGAAGGGUAAACUGAAACGCGAGUGCUCUUAAUUUCUUAUUUAUUUUAUCCCUAAAGCCACC---UUUU
-----------.........(((((((...((((((......))))))......((......)).....))))))).....................................---.... ( -17.50)
>consensus
___________AGAACUCAACACUUGCCAAUAGUGCUAUUUUGUACCACUCAAAAGGGUAAACUACAACGUUUAUUCUUUU_GUUUGUUAUUUAUAUUCUCCUUUAAGCAAAC___AUUU
............((((..((((((.......))))))..............(((((..(((((......)))))..))))).)))).................................. ( -9.14 =  -9.95 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:37 2006