Locus 5709

Sequence ID X_DroMel_CAF1
Location 14,783,183 – 14,783,275
Length 92
Max. P 0.561474
window9264

overview

Window 4

Location 14,783,183 – 14,783,275
Length 92
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 75.51
Mean single sequence MFE -24.78
Consensus MFE -12.64
Energy contribution -14.20
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -1.99
Structure conservation index 0.51
SVM decision value 0.06
SVM RNA-class probability 0.561474
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14783183 92 - 22224390
AAAGUGAAAUGUAGUAAACAGGCCUCACUAUUACG---------GCC--AAAAGGCCGGCCUCUCCAGGGGCAACUACUACCACGCACUAUCGUUGUUCCCUU
..((((....((((((.................((---------(((--....)))))(((((....)))))...))))))....)))).............. ( -28.80)
>DroSec_CAF1 18072 95 - 1
AAAGUGAAAUGUAGUAAACAGGCCCCACUAUUACUAUUU-----GUCAAAAAAGGCCGGUCUCUCCAUUGGC---UACUACCACACACUAUUGUUGUUCCUUU
..((((....((((((..((((((........((.....-----)).......))))((.....))..))..---))))))....)))).............. ( -19.26)
>DroSim_CAF1 18601 95 - 1
AAAGUGAAAUGUAGUAAACAGGCCCCACUAUUACUAUUU-----GUCAAAAAAGGCCGGCCUCUCCGUUGGC---UACUACCACACACUAUCGUUGUUCCUUU
..((((....(((((.....((((........((.....-----)).......))))((((........)))---))))))....)))).............. ( -20.26)
>DroEre_CAF1 12956 87 - 1
AAAGUGAAAUGUACCAAGCAGGCCCCACGAUUUCCAUCAGGGGGGCC--AAAAGGCCGGCCUCUCUGGGGG--------------CACUACUAUCGUUCCCUU
.(((.(.((((.....((.(((((((..(.....)..((((((((((--........))))))))))))))--------------).)).))..)))).)))) ( -30.80)
>consensus
AAAGUGAAAUGUAGUAAACAGGCCCCACUAUUACUAUUU_____GCC__AAAAGGCCGGCCUCUCCAGGGGC___UACUACCACACACUAUCGUUGUUCCCUU
..((((....((((((....((((.............................)))).(((........)))...))))))....)))).............. (-12.64 = -14.20 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:30 2006