Locus 3758

Sequence ID 2R_DroMel_CAF1
Location 12,405,833 – 12,405,931
Length 98
Max. P 0.728519
window6096

overview

Window 6

Location 12,405,833 – 12,405,931
Length 98
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 83.50
Mean single sequence MFE -22.82
Consensus MFE -15.69
Energy contribution -17.00
Covariance contribution 1.31
Combinations/Pair 1.10
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value 0.42
SVM RNA-class probability 0.728519
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12405833 98 + 20766785
--------UUUCAAAAGCUACAGCCAAUGCCAAGGCAACUUAAAAGGACUUGCAAGGAAAAGAAAGCCGUUGACCAAAGACCAGGCCAAAAAGCAGUGUUGGCCAA
--------..((((..(((...(((........)))............(((........)))..)))..))))..........((((((.........)))))).. ( -20.00)
>DroSec_CAF1 22374 98 + 1
--------UUUCAAAAGCUACAGCCAAUGCCAAGGUAACUUAAAAGGACUUGCAAGGAAAGGCAAGCCGUUGACCAAAGCCCAGGCCAAACACCAGUGUUGGCCAA
--------........(((.((((...(((....)))........((.(((((........))))))))))).....)))...((((((.((....)))))))).. ( -25.30)
>DroSim_CAF1 22947 98 + 1
--------UUUCAAAAGCUACAGCCAAUGCCAAGGUAACUCAAAAGGACUUGCAAGGAAAGGCAAGCCGUUGACCAAAGCCCAGGCCAAAAACCAGUGUUGGCCAA
--------..............((((((((...(((...((((..((.(((((........))))))).)))).....((....)).....))).))))))))... ( -24.90)
>DroYak_CAF1 23890 100 + 1
AUCAUAUCCUUUAAAAACUGCAGCCAAUGCCAAGGCAACUUAAAAGGAUCUCAAAGG-----AAAGCGGUAGACCAAAGACCAGGCCAAA-AGCAGUAAUGGCCAA
.....(((((((.......(((.....))).(((....))).)))))))......((-----.....((....)).....)).(((((..-........))))).. ( -21.10)
>consensus
________UUUCAAAAGCUACAGCCAAUGCCAAGGCAACUUAAAAGGACUUGCAAGGAAAGGAAAGCCGUUGACCAAAGACCAGGCCAAAAACCAGUGUUGGCCAA
....................((((...(((....)))........((.(((((........)))))))))))...........((((((.........)))))).. (-15.69 = -17.00 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:32 2006