Locus 9943

Sequence ID 3R_DroMel_CAF1
Location 26,617,443 – 26,617,542
Length 99
Max. P 0.540791
window15848

overview

Window 8

Location 26,617,443 – 26,617,542
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.51
Mean single sequence MFE -28.97
Consensus MFE -19.00
Energy contribution -19.12
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.18
Structure conservation index 0.66
SVM decision value 0.01
SVM RNA-class probability 0.540791
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26617443 99 + 27905053
CGUUCUCGGAGUAUUCCUCCCAGGGCUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUAUCAGAGUAGGAAUGAUAUUAUUAAAGCUGUUAAACACUACGU
.(((..(((..(((((((.(((((((((....))))))))).((((....))))..........)))))))............)))...)))....... ( -27.44)
>DroPse_CAF1 257356 90 + 1
CAUUCUCCGAGUAAUCCUCCCAGGGUUCCAUCGAGUCCUGACGCGAGUGAUUGCCUAUGGGGGGUGCAGU----UGAUUAGAGG-----AGCUCUCUUU
(((((((((.((((((((((((((..((....))..))))..).))).))))))...)))))))))....----.....((((.-----....)))).. ( -28.70)
>DroSec_CAF1 200673 99 + 1
CGUUCUCGGAGUAUUCCUCCCAGGGCUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUAUCAAAGUAAGAAUGGUAUUAUUGCAGCAGUUAAACACUUCUA
.......(((((.......(((((((((....))))))))).((..(..((((((..((.......))..))))..))..).))........))))).. ( -28.00)
>DroSim_CAF1 203998 97 + 1
CGUUCUCGGAGUAUUCCUCCCAGGGCUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUAUCAAAGUAGGAAUGGUAUUAUUACA--UGUUAAACACUUCGC
......((((((((((((.(((((((((....))))))))).((((....))))..........)))))).(((....))).--........)))))). ( -31.50)
>DroEre_CAF1 215571 95 + 1
CGUUCUCGGAGUAUUCCUCCCAGGGCUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUGAGAUGGGCGGAUUGGCAUUGUUACAU---CAUUAUA-UUCGU
...((((((.(((.((((((((((((((....)))))))))...))).)).)))))))))...((((((......((......---))....)-))))) ( -33.70)
>DroYak_CAF1 211379 96 + 1
CGUUCUCGGAGUACUCCUCCCAGGGUUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUAAGAUUAUAAGAUUAUAAGUAUGACAG---UGCUACACUUCGU
......((((((((((...(((((..((....))..)))))...)))).........................(((((....)---))))..)))))). ( -24.50)
>consensus
CGUUCUCGGAGUAUUCCUCCCAGGGCUCCAUCGAGUCCUGGCGCGAGUGAUUGCCUAUCAAAGUAGGAAUGGUAUUAUUACAG___UUAAACACUUCGU
.......((.(((.((((((((((((((....)))))))))...))).)).)))))........................................... (-19.00 = -19.12 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:22 2006