Locus 4215

Sequence ID 2R_DroMel_CAF1
Location 13,851,464 – 13,851,558
Length 94
Max. P 0.521275
window6771

overview

Window 1

Location 13,851,464 – 13,851,558
Length 94
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 81.42
Mean single sequence MFE -25.34
Consensus MFE -17.80
Energy contribution -17.68
Covariance contribution -0.12
Combinations/Pair 1.21
Mean z-score -1.52
Structure conservation index 0.70
SVM decision value -0.02
SVM RNA-class probability 0.521275
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13851464 94 + 20766785
GAAGCGUUUAGGUCGGCUAAUGCCCCCUAAUAUGCUCAACUUCCUUUCCGGUUUGGGGAGCAUUAAAUAUCCCCUAC---UC------CCCCCCUUUUGGGUG
((.(((((((((..(((....))).))))).))))))............((...(((((..........)))))...---.)------)..(((....))).. ( -28.40)
>DroSec_CAF1 151639 98 + 1
UAAGCGUUUAGGUCGGCUAAUGCCCCCUAAUAUGCUCAACUUCCUUUCCGGUUUGGGGGGCAUUAAAUAUCCCCAAC---CC--CCCCCCCCCCCCUUGGGAG
..((((((((((..(((....))).))))).)))))...(((((.....((...((((((.................---))--))))...)).....))))) ( -32.43)
>DroSim_CAF1 156884 101 + 1
GAAGCGUUUAGGUCGGCUAAUGCUCCCUAAUAUGCUCAACUUCCUUUCCGGUUUGGGAGGCAUUAAAUAUCCCCACUCCCCC--CCCCCCCCCCCCUUGGGUG
((.(((((((((..(((....))).))))).))))))............((...(((((................)))))..--.))..(((......))).. ( -24.29)
>DroEre_CAF1 152716 90 + 1
GAAGCGUUUAGGUCGGCUAAUGCCCCUUAAUGUGCUCAACUUCCUUUCCGGUUUGGGGGUC-UCGAAUAUGCCCAUC---UCCC---------CCCUUUUGUG
((.(((((.(((..(((....)))))).)))))..)).................(((((..-...............---.)))---------))........ ( -20.47)
>DroYak_CAF1 157036 99 + 1
GAAGCGUUUAGGUCGGCUAAUGCCCCUUAAUAUGCUCAACUUCCCUUCCGGUUUGGGGGCC-ACAAAUAUCCCCAUC---UUCCCCUCCCUCCCCUUUUUGUG
((.(((((((((..(((....))).))))).))))))............((..((((((..-.......))))))..---..))................... ( -21.10)
>consensus
GAAGCGUUUAGGUCGGCUAAUGCCCCCUAAUAUGCUCAACUUCCUUUCCGGUUUGGGGGGCAUUAAAUAUCCCCAAC___UC__CC_CCCCCCCCCUUGGGUG
..((((((((((..(((....))).))))).))))).................((((((..........))))))............................ (-17.80 = -17.68 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:27 2006