Locus 5557

Sequence ID X_DroMel_CAF1
Location 14,371,439 – 14,371,533
Length 94
Max. P 0.511980
window9018

overview

Window 8

Location 14,371,439 – 14,371,533
Length 94
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 86.74
Mean single sequence MFE -17.16
Consensus MFE -13.30
Energy contribution -13.46
Covariance contribution 0.16
Combinations/Pair 1.27
Mean z-score -1.47
Structure conservation index 0.77
SVM decision value -0.04
SVM RNA-class probability 0.511980
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14371439 94 + 22224390
GGCUUUUGAA-AAUAU-AUAUAUGUAUAUCCGGACAAAUUCGGCGAGUGCUCAG-CAAAAAAUGUAUAUUAUGACAGAAGUCAUGACAAAUCCCAAA
((..((((..-....(-((((((......(((((....)))))....(((...)-))....)))))))(((((((....)))))))))))..))... ( -18.70)
>DroSec_CAF1 85758 96 + 1
GGCUUUUGGAACAUACCAAAAAUAUAUAUCCGGACAAAUCCGGCGAGUGCUCAG-CAAAAAAUUUAUAUUAUGACAAAAGGCAUGACAAAUCCCAAA
(.((((((...((((..............(((((....)))))....(((...)-))............)))).)))))).)............... ( -15.90)
>DroSim_CAF1 81666 96 + 1
GCCUUUUGGAAAAUACCAAAAAUAUAUAUCCGGACAAAUCCGGCGAGUGCUCAG-CAAAAAAUUUAUAUUAUGACAGAAGGCAUGACAAAUCCCAAA
((((((((.....................(((((....)))))....(((...)-)).................))))))))............... ( -19.30)
>DroEre_CAF1 78986 92 + 1
GGCUUUUGAA-AACAC-AGAAAUAUAUAUCCGGACAAAUCCUGCGAGUGCUCGG-CAAAAAA--CACAUUAUGACAGAAGCCAUGACAAGUCCCAAA
((((((((..-.....-..............(((....)))(((((....)).)-)).....--..........))))))))............... ( -16.60)
>DroYak_CAF1 88874 94 + 1
GGCUUUUGAA-AUUACCACGAAUAUAUAUCCUGACAAAUCCUGCGAGUGCUCAGCCAAAAAA--UAUAUUCCGACAGAAGCCAUGACAAAUCCCAAA
((((((((..-........((((((((...((((....((....))....)))).......)--)))))))...))))))))............... ( -15.32)
>consensus
GGCUUUUGAA_AAUACCAAAAAUAUAUAUCCGGACAAAUCCGGCGAGUGCUCAG_CAAAAAAU_UAUAUUAUGACAGAAGCCAUGACAAAUCCCAAA
((((((((.....................(((((....))))).((....))......................))))))))............... (-13.30 = -13.46 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:51 2006