Locus 2198

Sequence ID X_DroMel_CAF1
Location 5,951,521 – 5,951,637
Length 116
Max. P 0.671076
window3568

overview

Window 8

Location 5,951,521 – 5,951,637
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.32
Mean single sequence MFE -20.70
Consensus MFE -13.66
Energy contribution -13.85
Covariance contribution 0.19
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.66
SVM decision value 0.29
SVM RNA-class probability 0.671076
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5951521 116 + 22224390
CUAUAAGUAACUGUAUAUGUAAUAUAACUGUAUAUAUGUAAAUCGCAUAUAACACAUUGUAUAUAAUCCAUCACCCUCGUCGGGGC----UAUCAUCGUUUUCGACAGCUACUAUUUAAA
.....((((.((((.......((((((.(((.(((((((.....)))))))..)))))))))...........(((.....)))..----..............)))).))))....... ( -19.80)
>DroSec_CAF1 38947 118 + 1
CUAUAAGUAACUGUAUAUGUAAUAUAACUUUAUAUAUGUAAAUCGCAUAUAACAC-UUGUAUAUAAUCCAUCACCCUCGUCGGGGUUAUGUAUCUUCGUUUUCGACAGCUAC-AUUUAAA
......(((.((((..................(((((((.....)))))))....-..(((((((((((..(......)...)))))))))))...........)))).)))-....... ( -21.40)
>DroSim_CAF1 45099 118 + 1
CUAUAAGUAACUGUAUAUGUAAUAUAACUGUAUAUAUGUAAAUCGCAUAUAACAC-UUGUAUAUAAUCCAUCACCCUCGUCGGGGUCAUGUAUCUUCGUUUUCGACAGCUAC-AUUUAAA
......(((.((((.......((((((.(((.(((((((.....)))))))))).-))))))......(((.(((((....))))).)))..............)))).)))-....... ( -24.50)
>DroYak_CAF1 41739 96 + 1
CUAUAAGUAACUGUAAAUGUAAUAUAACUGUAUAUAUGUAAAUCGCAUAUAACAC-UUGUAUAUAAUCCAUCA----------------------UCGUAUUCGACAGCUAC-AUUUAAA
.............((((((((((((((.(((.(((((((.....)))))))))).-))))))...........----------------------(((....)))....)))-))))).. ( -17.10)
>consensus
CUAUAAGUAACUGUAUAUGUAAUAUAACUGUAUAUAUGUAAAUCGCAUAUAACAC_UUGUAUAUAAUCCAUCACCCUCGUCGGGGU____UAUCUUCGUUUUCGACAGCUAC_AUUUAAA
......(((.((((.......((((((.....(((((((.....))))))).....))))))...........(((.....)))....................)))).)))........ (-13.66 = -13.85 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:34 2006