Locus 5138

Sequence ID 2R_DroMel_CAF1
Location 16,724,693 – 16,724,796
Length 103
Max. P 0.927299
window8216

overview

Window 6

Location 16,724,693 – 16,724,796
Length 103
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 72.73
Mean single sequence MFE -26.04
Consensus MFE -14.54
Energy contribution -15.32
Covariance contribution 0.78
Combinations/Pair 1.06
Mean z-score -1.84
Structure conservation index 0.56
SVM decision value 1.18
SVM RNA-class probability 0.927299
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16724693 103 - 20766785
CAAAGCCAA---CUUAUGGCUUAUGUUGUGGAAAAUAUUUUAGGAAAAUCACAUUUUAUGAUGCACACUGCUUUGAUAAGGGAACUUGUCGAAAGUGGUCAUCAGG
..((((((.---....))))))....(((((.................))))).....(((((..((((..(((((((((....)))))))))))))..))))).. ( -28.23)
>DroPse_CAF1 34784 87 - 1
UUGACUC-----C---------AUAUUUUGG-----GUGGCAGGAAAGUCGCAUUUCAUGAUGCACACGGCCCUGAUGAGGGAGCUCGUCGAGAGCGGCCACCAGG
.......-----.---------........(-----(((((......((.(((((....)))))))...((.((((((((....)))))).)).)).))))))... ( -30.80)
>DroSec_CAF1 32788 83 - 1
UAAAACCCA---CAUAUG--------------------UUUAGGAAAAUCCCAUUUUAUGAUGCACACUGCUCUGAUAAGGGAACUUGUCGAAAGUGGUCAUCAGG
......((.---......--------------------....((......))......(((((..((((..((.((((((....)))))))).))))..))))))) ( -21.60)
>DroSim_CAF1 34949 83 - 1
UAAAACCCA---CAUAUG--------------------UUUAGGAAAAUCCCAUUUUAUGAUGCACACUGCUUUGAUAAGGGAACUUGUCGAAAGUGGACAUCAGG
......((.---......--------------------....((......))......(((((..((((..(((((((((....)))))))))))))..))))))) ( -23.60)
>DroEre_CAF1 33692 103 - 1
UUAAGCCGA---CUCAUGGCUCAUGUUUUGGAAAAUGUUUUAGGAAAAUCACAUUUUAUGAUGCACACUGCUUUAAUAAGGGAACUUGUGGAAAGUGGUCAUCAGG
.....((((---..((((...))))..))))(((((((............))))))).(((((...((..((((.(((((....)))))..))))..))))))).. ( -25.10)
>DroYak_CAF1 39258 106 - 1
UUAAGCCGACUACUCAUGGGUUAUGUUUGGGAAAAUGUUUUAGGGAAAUCACAUUUUAUGAUGCACACUGCCCUAAUAAGGGAACUGGUGGAGAGUGGUCAUCAGG
.......((((((((........(((.....(((((((............))))))).....)))((((.((((....))))....))))..))))))))...... ( -26.90)
>consensus
UAAAGCCCA___CUUAUG____AUGUUUUGG_____GUUUUAGGAAAAUCACAUUUUAUGAUGCACACUGCUCUGAUAAGGGAACUUGUCGAAAGUGGUCAUCAGG
..........................................................(((((..((((....(((((((....)))))))..))))..))))).. (-14.54 = -15.32 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:30 2006