Locus 1471

Sequence ID X_DroMel_CAF1
Location 4,407,516 – 4,407,633
Length 117
Max. P 0.986908
window2344

overview

Window 4

Location 4,407,516 – 4,407,633
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.05
Mean single sequence MFE -33.08
Consensus MFE -29.32
Energy contribution -29.72
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.89
SVM decision value 2.06
SVM RNA-class probability 0.986908
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4407516 117 + 22224390
CCCUCCGCUUUCGACUUCAAAGUGCCCAUAACAUAAAACAUAUAACAAUCGAC---CCACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.((((((((((.(....))))))...........................(((---((....)))))))))).....((((.(((((.((((((((.....)))).)))).))))))))) ( -33.30)
>DroSec_CAF1 10039 117 + 1
CCCUCCGCUUUCGACUUCAAAGUGCCCAUACCAUAAAACAUAAAACAAUCGAC---CCACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.((((((((((.(....))))))...........................(((---((....)))))))))).....((((.(((((.((((((((.....)))).)))).))))))))) ( -33.30)
>DroSim_CAF1 10130 117 + 1
CCCUCCGCUCUCGACUUCAAAGUGCCCAUACCAUAAAACAUAAAACAAUCGAC---CCACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.(((((((((((((((....)))......................(....)..---...)))))).)))))).....((((.(((((.((((((((.....)))).)))).))))))))) ( -32.70)
>DroEre_CAF1 10816 107 + 1
CCCUCCGCUUGCAACUUCAAAGUGCCCAU------------AAAACAAUCGACC-CACACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.(((((....(((.((....)))))....------------.........((((-(......)))))))))).....((((.(((((.((((((((.....)))).)))).))))))))) ( -33.30)
>DroYak_CAF1 10200 108 + 1
CCCUCCGCUUUUAACUUCAAAGUGCCCAU------------AAAACAAUCGACGACCCACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.((((((((((.......)))))).....------------...........((((((....)))))))))).....((((.(((((.((((((((.....)))).)))).))))))))) ( -32.80)
>consensus
CCCUCCGCUUUCGACUUCAAAGUGCCCAUA_CAUAAAACAUAAAACAAUCGAC___CCACGAGGGUUGGAGGAGAAAGGUGCGCCCAUUUAGUAAUAAUUGGUUGCCUAAUUGGGCCAUU
.((((((((((.......)))))....................(((..(((........)))..)))))))).....((((.(((((.((((((((.....)))).)))).))))))))) (-29.32 = -29.72 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:11 2006