Locus 3948

Sequence ID 3L_DroMel_CAF1
Location 11,458,913 – 11,459,007
Length 94
Max. P 0.910843
window6146

overview

Window 6

Location 11,458,913 – 11,459,007
Length 94
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 83.19
Mean single sequence MFE -34.85
Consensus MFE -27.75
Energy contribution -27.75
Covariance contribution 0.00
Combinations/Pair 1.10
Mean z-score -2.03
Structure conservation index 0.80
SVM decision value 1.07
SVM RNA-class probability 0.910843
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11458913 94 + 23771897
CGCCACAAAGGCUCACUAAGUGGUCCAUUCGACGAAGGCGAUGGCGAUGCCAAUGGCCAUGGCUAGAUGGUUGAAUGG--UUGGAU--------------GGCAUUGGGC
.(((.(((..((.((((((.....(((((((((.(.(((.(((((.((....)).))))).)))...).)))))))))--)))).)--------------))).)))))) ( -35.90)
>DroSec_CAF1 178655 87 + 1
CGCCACAAAGGCUCACUAAGUGGUCCAUUCGACGAAGGCGAUGGCGAU------GGCGAUGGCUAGAUGGUUGGAUGGCAUUG-----------------GGCAUUGGGC
.(((.(((..(((((....(((..(((((((((.(.(((.((.((...------.)).)).)))...).))))))))))))))-----------------))).)))))) ( -31.40)
>DroSim_CAF1 191877 87 + 1
CGCCACAAAGGCUCACUAAGUGGUCCAUUCGACGAAGGCGAUGGCGAU------GGCGAUGGCUAGAUGGUUGGAUGGCAUUG-----------------GGCAUUGGGC
.(((.(((..(((((....(((..(((((((((.(.(((.((.((...------.)).)).)))...).))))))))))))))-----------------))).)))))) ( -31.40)
>DroYak_CAF1 178381 102 + 1
CGCCACAAAGGCCCACUAAGUGCUCCAUUCGACGAAGGCGAUUGCGAU------GGCAAUGGCUAGAUGGUUGGAUGG--UUAGAUGGCAUAGGAGUUUGGGCAUUGGGC
.(((.(((..(((((((..((((((((((((((.(.(((.(((((...------.))))).)))...).)))))))))--......)))))...)))..)))).)))))) ( -40.70)
>consensus
CGCCACAAAGGCUCACUAAGUGGUCCAUUCGACGAAGGCGAUGGCGAU______GGCGAUGGCUAGAUGGUUGGAUGG__UUG_________________GGCAUUGGGC
.(((.(((..((((((...)))..(((((((((.(.(((.(((((..........))))).)))...).)))))))))......................))).)))))) (-27.75 = -27.75 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:42 2006