Locus 4065

Sequence ID 3L_DroMel_CAF1
Location 11,844,450 – 11,844,550
Length 100
Max. P 0.516977
window6331

overview

Window 1

Location 11,844,450 – 11,844,550
Length 100
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -26.67
Consensus MFE -15.89
Energy contribution -18.57
Covariance contribution 2.69
Combinations/Pair 1.08
Mean z-score -1.82
Structure conservation index 0.60
SVM decision value -0.03
SVM RNA-class probability 0.516977
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11844450 100 + 23771897
AAAAUUUUAGUUCCAGGAUCUAAGGCAUUGGAAUGACAU----------UUUUCAGGACCUGCUAUUGUAUGAUUUGCAGUGGCAGUCCAGAACAGUAGACAACCAUAUU
.........(((((((..(.....)..)))))))...((----------(.(((.((((.((((((((((.....)))))))))))))).))).)))............. ( -26.90)
>DroSec_CAF1 20476 110 + 1
AAAAUUGUAGUGCCAGGAUCUAAGGCAUUGGAACGGCAUAAGUAAAUGUUUAACAGAACCUGCUAUUGUAUGAUUUGCAGUGGCAGUCCAGAACAGUAGACAACCAUAUU
...(((((((((((.........))))))(((..(((((......))))).........(((((((((((.....))))))))))))))...)))))............. ( -28.20)
>DroSim_CAF1 21599 110 + 1
AAAAUUUUAGUGCCAGGAUCUAAGGCAUUCGAACGGCAUAAGUAAAUGUUUAACAGAACCUACUAUUGUAUGAUUUGCAGUGGCAGUCCGGAACAGUAGACAACCAUAUU
....(((.((((((.........)))))).))).((...........((((....))))...(((((((.((..((((....))))..))..)))))))....))..... ( -19.80)
>DroYak_CAF1 21144 108 + 1
AAAAUUUUAGUGUCAGCAUUUUAGC--UGGAAACGCGUUAAGUAAAUAUUUUACAGGACUGGCUGUUGUAUAAUUUGCAUUGGCAGUCCAGAACAGUUGACAACCAAAUG
...((((...(((((((...(((((--((....)).)))))((((.....)))).((((((.(...((((.....))))..).))))))......)))))))...)))). ( -31.80)
>consensus
AAAAUUUUAGUGCCAGGAUCUAAGGCAUUGGAACGGCAUAAGUAAAUGUUUAACAGAACCUGCUAUUGUAUGAUUUGCAGUGGCAGUCCAGAACAGUAGACAACCAUAUU
....((((((((((.........))))))))))......................((((.((((((((((.....))))))))))))))..................... (-15.89 = -18.57 +   2.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:42 2006