Locus 6455

Sequence ID 2R_DroMel_CAF1
Location 20,166,002 – 20,166,106
Length 104
Max. P 0.825280
window10294

overview

Window 4

Location 20,166,002 – 20,166,106
Length 104
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 78.73
Mean single sequence MFE -38.17
Consensus MFE -23.86
Energy contribution -23.36
Covariance contribution -0.50
Combinations/Pair 1.18
Mean z-score -1.98
Structure conservation index 0.63
SVM decision value 0.70
SVM RNA-class probability 0.825280
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20166002 104 + 20766785
UCCUUUUACAAUACAUA-----CAACAUAUAUGUAUGUUGUGUGACAUGGCCAGGCGUGCCAGGAUGCCAGGGCGCCAG--------GGAGCCAGGGAGCCAUGGUGCCAUGGUGCC
(((..........((((-----(((((((....)))))))))))...(((((....).))))))).((((.(((((((.--------((..(....)..)).))))))).))))... ( -44.40)
>DroSec_CAF1 42973 104 + 1
UCCUUUUACAACACAUA-----CAACAUAUACGUAUGUUAUGUGACAUGGCCAGGCGUGCCAGGAUGCCAGGGAGCCAG--------GGAGCCAGGGAGCCAUGGUGCCAUGGUGCC
......(((..((((((-----..(((((....))))))))))).((((((..(((((......))))).....((((.--------((..(....)..)).))))))))))))).. ( -34.70)
>DroSim_CAF1 44438 112 + 1
UCCUUUUACAACACAUA-----CAACAUAUACGUAUGUUGUGUGACAUGGCCAGGCGUGCCAGGAUGCCAGGGAGCCAGGGAACCAGGGAGCCAGGGAGCCAGGGAGCCAUGGUGCC
((((.........((((-----(((((((....)))))))))))...(((((.(((((......)))))...).))))))))((((.((..((..(....)..))..)).))))... ( -41.40)
>DroYak_CAF1 45683 89 + 1
UCCUUUCACAACACACACCAUACAACCUG----UAUGUUGUGUGACAUGGCCAGGCGUGCCAGGAUGCCGUGCUGCCAG------------------------GAUGCCAUGGUGCC
......(((..((((((.(((((.....)----)))).)))))).((((((..((((.((..((...))..))))))..------------------------...))))))))).. ( -32.20)
>consensus
UCCUUUUACAACACAUA_____CAACAUAUACGUAUGUUGUGUGACAUGGCCAGGCGUGCCAGGAUGCCAGGGAGCCAG________GGAGCCAGGGAGCCAUGGUGCCAUGGUGCC
......(((..((((((.......(((((....))))))))))).((((((..(((((......)))))..................((..(....)..)).....))))))))).. (-23.86 = -23.36 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:23 2006