Locus 3391

Sequence ID X_DroMel_CAF1
Location 9,070,264 – 9,070,361
Length 97
Max. P 0.511263
window5551

overview

Window 1

Location 9,070,264 – 9,070,361
Length 97
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.09
Mean single sequence MFE -18.33
Consensus MFE -9.43
Energy contribution -9.68
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.51
SVM decision value -0.04
SVM RNA-class probability 0.511263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9070264 97 - 22224390
AAUUGAU--------------AAAAUUAAUAUAAAGUUUCCAUUCUGUUACGCAGCGUGGAAUCUCCCACUCUGCAUCAUG-----CGUUUCUUUCUAA----AAAAAAUUAAUAAAUAU
...((((--------------..............((..(......)..))((((.((((......)))).))))))))..-----.............----................. ( -14.30)
>DroSec_CAF1 3440 100 - 1
AACUGAU--------------AAAAUGAACAUAAAGUUUCCAUUCUGUUAUGCAGUGUGGAAUCUUCC-CAUUGCAUCAUUUCUUUGGUUUCUUUCUAA----AA-AUAUUAUUAAAUAA
...((((--------------((.((......((((...(((....((.((((((((.(((....)))-)))))))).)).....)))...))))....----..-)).))))))..... ( -20.60)
>DroSim_CAF1 3872 101 - 1
AACUGAU--------------AAAAUGAACAUAAAGUUUCCAUUCUGUUACACAGUGUGGAAUCUUCCACUUUGUAUAAUUUCUUUGGUUUCUUUCUAA----AA-ACAUUAAUAAAUAA
(((..(.--------------.((((....(((((((((((((.(((.....))).))))))......)))))))...))))..)..))).........----..-.............. ( -17.50)
>DroEre_CAF1 6681 115 - 1
AAGUGAUAUUAUUUACAUAACAACUUGAUUACAAAGUUUCCAUUCUGUUACGCAGUUUGGAAUGUAACCCUUUGAAUCAUG-----CGUUUCUUUCAGAUGAGAAUAAAUUAUUAAAUAA
.((((((.((((((.(((...(((.(((((.(((((.(((((..(((.....)))..))))).......))))))))))..-----.)))........))).))))))))))))...... ( -20.90)
>consensus
AACUGAU______________AAAAUGAACAUAAAGUUUCCAUUCUGUUACGCAGUGUGGAAUCUUCCACUUUGCAUCAUG_____CGUUUCUUUCUAA____AA_AAAUUAAUAAAUAA
.....................................((((((.(((.....))).)))))).......................................................... ( -9.43 =  -9.68 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:13 2006