Locus 9966

Sequence ID 3R_DroMel_CAF1
Location 26,686,299 – 26,686,401
Length 102
Max. P 0.903867
window15884

overview

Window 4

Location 26,686,299 – 26,686,401
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.23
Mean single sequence MFE -33.92
Consensus MFE -29.04
Energy contribution -29.20
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.60
Structure conservation index 0.86
SVM decision value 1.03
SVM RNA-class probability 0.903867
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26686299 102 + 27905053
UUGACAAAACGGUUAAGUCGGCGUUCCGAAAGCGCCGGUCCAUGACAUAU-----UUUCAG-------------GGGAAAAAGGCGAGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(((((....((((..(((.(((.....-----..))).-------------.)))....))))..)))))))))))..)))...))).....))))) ( -32.10)
>DroSec_CAF1 277061 102 + 1
UUGACAAAACGGUUAAGUCGGCGUUCCGAAAGCGCCGGUCCAUGACAUAU-----UUUCAG-------------GGGAAACAGGCGCGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(((((...(((((..(((.(((.....-----..))).-------------.)))....))))).)))))))))))..)))...))).....))))) ( -35.80)
>DroSim_CAF1 273807 102 + 1
UUGACAAAACGGUUAAGUCGGCGUUCCGAAAGCGCCGGUCCAUGACAUAU-----UUUCAG-------------GGGAAACAGGCGCGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(((((...(((((..(((.(((.....-----..))).-------------.)))....))))).)))))))))))..)))...))).....))))) ( -35.80)
>DroEre_CAF1 293022 108 + 1
UUGACAAAACGGUUAAGUCGGCGUUUCGAAAGCGCCGGUCCAUGACAUAUUCUAUUUUUAGG------------GGGAAACAGGCGCGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(..((...(((((.(((...)))...(((((....))))------------)(....).))))).))..)))))))..)))...))).....))))) ( -32.70)
>DroYak_CAF1 282029 115 + 1
UUGACAAAACGGUUAAGUCGGCGUUUCGAAAGCGCCGGUCCAUGACAUAU-----UUUCAGGGAGGGAGCGGGGGGUAAACAGGCGCGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(..((...((((((.(((.(((.....-----..))).....))).)...(......).))))).))..)))))))..)))...))).....))))) ( -33.20)
>consensus
UUGACAAAACGGUUAAGUCGGCGUUCCGAAAGCGCCGGUCCAUGACAUAU_____UUUCAG_____________GGGAAACAGGCGCGCGGGGGCUGGCAAUUAUAAUGUGACAAUGUCA
.(((((..(((..(((((((((.(((((...(((((.(((...))).............................(....).))))).)))))))))))..)))...))).....))))) (-29.04 = -29.20 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:55 2006