Locus 231

Sequence ID 2R_DroMel_CAF1
Location 1,577,600 – 1,577,720
Length 120
Max. P 0.604455
window508

overview

Window 8

Location 1,577,600 – 1,577,720
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -38.07
Consensus MFE -31.97
Energy contribution -33.87
Covariance contribution 1.89
Combinations/Pair 1.06
Mean z-score -2.07
Structure conservation index 0.84
SVM decision value 0.14
SVM RNA-class probability 0.604455
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1577600 120 + 20766785
UUCCGCCUUCCAAAUGGCUGGUACACGGAUACGGAUACUCGCCAGUGGUGACAUCUUUUAACUUAAGUGCUGGCGGCAAUGCAAAUGCUUGCAAAUUGCUCAGUUAUUCCAUGGCACAGU
....(((.....(((((((((((..((....))..))).((((((((....)........((....)))))))))(((((((((....)))))..)))).))))))))....)))..... ( -36.90)
>DroSec_CAF1 16662 119 + 1
UUCCGCCUUUCGAAUGGCUGGAAUACGGAUGGGGAUACUUCCCAUUGGUGACAUCCUUUAACUUAAGUGCUGGCGGCAAUGCAAAUGCUUGCAAAUAGCUCAGUUAUUCCAU-GCACAGU
(((((((........))).))))(((.((((((((...)))))))).)))................(((((((..((((.((....)))))).((((((...))))))))).-))))... ( -36.70)
>DroSim_CAF1 12892 120 + 1
UUCCGCCUUUCGAAUGGCUGGAAUACGGAUGGGGAUACUUCCCAUUGGUGACAUCCUUUAACUUAAGUGCUGGCGGCAAUGCAAAUGCUUGCAAAUAGCUCAGUUAUUCCAUGGCACAGU
....(((....((((((((((..(((.((((((((...)))))))).)))..................((((...((((.((....))))))...))))))))))))))...)))..... ( -40.60)
>consensus
UUCCGCCUUUCGAAUGGCUGGAAUACGGAUGGGGAUACUUCCCAUUGGUGACAUCCUUUAACUUAAGUGCUGGCGGCAAUGCAAAUGCUUGCAAAUAGCUCAGUUAUUCCAUGGCACAGU
....(((....((((((((((..(((.((((((((...)))))))).)))..................((((...((((.((....))))))...))))))))))))))...)))..... (-31.97 = -33.87 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:05 2006