Locus 1783

Sequence ID 3R_DroMel_CAF1
Location 5,113,110 – 5,113,225
Length 115
Max. P 0.921007
window2936

overview

Window 6

Location 5,113,110 – 5,113,225
Length 115
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 71.24
Mean single sequence MFE -20.37
Consensus MFE -8.84
Energy contribution -10.15
Covariance contribution 1.31
Combinations/Pair 1.12
Mean z-score -2.49
Structure conservation index 0.43
SVM decision value 1.14
SVM RNA-class probability 0.921007
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5113110 115 - 27905053
CAAUUUCCAUACUUUAAUACUUAUGUAAAUUCUUAGCAGGUGUCAUACUUUAUUCAUCUUAUUUACUUAAAGCAUUAAAGUAAAGUAAAGAA-ACCCCACUUUCGAGGGCAACCGA
.........(((((((((.(((..((((((.......(((((............))))).))))))...))).))))))))).......(((-(......))))..((....)).. ( -18.60)
>DroSec_CAF1 14764 114 - 1
UAAUUUCCAUACUUUAAUACUUAUGAAAACGCUUAGCAGCUGUCUUACUUUAUUCAUCUUAUUUACUUAAAGCAUUAAAGUAU-GAAUCGAA-ACCCCACUUUUGGGGGCAGCCAA
.......(((((((((((............(((....))).......(((((...............))))).))))))))))-).......-.(((((....)))))........ ( -21.36)
>DroSim_CAF1 15313 99 - 1
UAAUUCCCAUA----------------AAUUCUUAGCAGCUGUCUUACUUUAUUCAUCUUAUUUACUUAAAGCAUUAAAGUAU-GAAUCGAAAACCCCACUUUCGGGGGCAGCCAA
...........----------------...........(((((..(((((((......(((......))).....))))))).-..........((((......)))))))))... ( -17.40)
>DroYak_CAF1 16023 107 - 1
-------GUUACUUUAAUUCCUAUGAAAAUUCGUAGCAGGUGUCAUACCUUAUUCGACGCAUUUACUUAAUGAAUUAAAGUAG-CAAUCCAAAACCCACAACCCC-AAACACCAAA
-------(((((((((((((((((((....))))))...(((((...........)))))...........))))))))))))-)....................-.......... ( -24.10)
>consensus
UAAUUUCCAUACUUUAAUACUUAUGAAAAUUCUUAGCAGCUGUCAUACUUUAUUCAUCUUAUUUACUUAAAGCAUUAAAGUAU_GAAUCGAA_ACCCCACUUUCGGGGGCAGCCAA
......................................(((((..(((((((.......................)))))))............((((......)))))))))... ( -8.84 = -10.15 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:22 2006