Locus 4075

Sequence ID 3R_DroMel_CAF1
Location 11,109,250 – 11,109,341
Length 91
Max. P 0.807763
window6526

overview

Window 6

Location 11,109,250 – 11,109,341
Length 91
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 69.14
Mean single sequence MFE -29.26
Consensus MFE -7.96
Energy contribution -9.68
Covariance contribution 1.72
Combinations/Pair 1.11
Mean z-score -1.97
Structure conservation index 0.27
SVM decision value 0.64
SVM RNA-class probability 0.807763
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11109250 91 + 27905053
GUCUGGAGCUGCUCGAGAAAAGGGGCAAUAGCCCAGUGCAGCUGAG----UGAUUCAUCUUGGGUUUUUAAUUCGAGGAUGGUAGCUACAGC---AUC
((((((.(((((((........))))...))))))).)).((((((----(...(((((((.((........)).)))))))..))).))))---... ( -32.30)
>DroSec_CAF1 19774 70 + 1
---------------------GGGGCAAUAGCCCAGUGCAGCCGAG----UGAUUCAUCUUGGGUUUUAAAUUCGAGGAUGGUAGCUUCAGC---AUC
---------------------.((((....)))).((((....(((----(...(((((((.((........)).)))))))..))))..))---)). ( -22.50)
>DroSim_CAF1 18361 91 + 1
GUCUGGAGCGGCUCGAGAAAAGGGGCAAUAGCCCAGUGCAGCCGAG----UGAUUCAUCUUGGGUUUUUAAUUCGAGGAUGGUAGCUUCAGC---AUC
(.(((((((.(((((.(..(..((((....))))..)....)))))----)...(((((((.((........)).)))))))..))))))))---... ( -33.30)
>DroEre_CAF1 20053 85 + 1
GUCUGGAU--UCUGGAGU--------CUCGCUCCACUGCAGCUCAGUGGGUGACUCAUCUUGGGUUUUGUAUUCGAGGAUGGUUGCUUCAGC---AUC
.....(((--.(((((((--------.((((.((((((.....)))))))))).(((((((.((........)).)))))))..))))))).---))) ( -29.80)
>DroYak_CAF1 20435 88 + 1
GUCAGAAA--GCAGAAGU--------CUGGAGCCACUGCAGCCGAGUGGGUGACUCAGCUUGGGUUUUCAAUGCGAGGAUGCUAGCUUUAGCUUCAUC
........--...((((.--------(((((((....((..((((((((....))..))))))((((((.....))))))))..)))))))))))... ( -28.40)
>consensus
GUCUGGAG__GCUCGAGA___GGGGCAAUAGCCCAGUGCAGCCGAG____UGAUUCAUCUUGGGUUUUUAAUUCGAGGAUGGUAGCUUCAGC___AUC
......................((((....))))...((.((((((.......)))..(((((((.....)))))))...))).))............ ( -7.96 =  -9.68 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:28 2006