Locus 1735

Sequence ID X_DroMel_CAF1
Location 4,824,565 – 4,824,675
Length 110
Max. P 0.653537
window2844

overview

Window 4

Location 4,824,565 – 4,824,675
Length 110
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 79.59
Mean single sequence MFE -26.17
Consensus MFE -20.68
Energy contribution -20.52
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.43
Structure conservation index 0.79
SVM decision value 0.25
SVM RNA-class probability 0.653537
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4824565 110 + 22224390
UCGUUCGUCGACUGUUUUUGGAUUUUAGCCAAAAGCCAAUGGCAC----AAUGAAAAAAGAAUAAUAAAAAAAAAAAAACAGCUCCUCUGCCUUGGCGCCAAAGUGGGUCACUC
.........((((..((((((......(((((..(((...)))..----................................((......)).))))).))))))..)))).... ( -21.40)
>DroSec_CAF1 30746 93 + 1
UCGUUGGUCGACUCUUUUUGGAUUUUAGCCAAAAGCCAAUGGCAC----AAACA-----------------GAAGAAAAAAGCGCCUCUGCCUUGGCGCCAAAGUGGGUCACUC
.....(((.(((((.(((((.......((((........))))..----.....-----------------..........(((((........)))))))))).)))))))). ( -26.30)
>DroSim_CAF1 30613 93 + 1
UCGUUGGCCGACUCUUUUUGGAUUUUAGCCAAAAGCCAAUGGCAC----AAAGA-----------------GAAGAAAAAAGCGCCUCUGCCUUGGCGCCAAAGUGGGUCACUC
....(((((.((((((((((.......((((........)))).)----)))))-----------------))........(((((........)))))....)).)))))... ( -29.50)
>DroEre_CAF1 40509 83 + 1
UCGUUCCCCGGCUGUUUUUGGAUUUUAGCCAAAAGCCAAAGGCAA-------------------------------AAAAAGCGACUCUGCCUUGGCGCCAAAGUGGGUCACUC
..((..((((((...((((((.......))))))(((((.((((.-------------------------------............)))))))))))).....)))..)).. ( -25.42)
>DroYak_CAF1 31880 97 + 1
UCGUUCGCCGACUGUUUUUGGAUUUCAGCCAAAAGCCAAAGGCAAAGGCAACAA-----------------CAAAAAAAAGGCGACUGUGCCUUGGCGCCAAAGUGGGUCACUC
..((..(((.(((((((((((.......))))))))....(((.((((((....-----------------........((....)).))))))...)))..))).))).)).. ( -28.22)
>consensus
UCGUUCGCCGACUGUUUUUGGAUUUUAGCCAAAAGCCAAUGGCAC____AAAGA_________________GAAAAAAAAAGCGCCUCUGCCUUGGCGCCAAAGUGGGUCACUC
.........((((..((((((......(((((..(((...)))......................................((......)).))))).))))))..)))).... (-20.68 = -20.52 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:44 2006