Locus 220

Sequence ID 2R_DroMel_CAF1
Location 1,558,258 – 1,558,378
Length 120
Max. P 0.740314
window492

overview

Window 2

Location 1,558,258 – 1,558,378
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.92
Mean single sequence MFE -38.56
Consensus MFE -31.14
Energy contribution -31.02
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.57
Structure conservation index 0.81
SVM decision value 0.45
SVM RNA-class probability 0.740314
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1558258 120 - 20766785
CGAACGACCUCGACCGUUGCCGCUGAAUCCGUGCACAGGACUAAACAGUCCAAAUCGGCGGAACCGGCGCCAAAGUCUGCGUCGCUAAUGGGAUCCACAAAAACCCACGACGUCCAUGAA
.....(((.(((...(((.(((((((....(....).(((((....)))))...))))))))))((((((........))))))....((((...........))))))).)))...... ( -36.30)
>DroSec_CAF1 8021 120 - 1
CGAACGACCUCGACCGUUGCCGCUGAAUCCGUGCACAGGACUAAACAGUCCAAAUCGGCGGAACCGGCGCCAAAGUCUGCGUCGCUAAUGGGAUCCACACGAACCCGCGACGUCCGCAAA
....((.....(((..(((.(((((..(((((.....(((((....)))))......)))))..))))).))).))).(((((((....(((.((.....)).)))))))))).)).... ( -40.10)
>DroSim_CAF1 9503 120 - 1
CGAACGACCUCGACCGUUGCCGCUGAAUCCGUGCACAGGACUAAACAGUCCAAAUCGGCGGAACCGGCGCCAAAGUCUGCGUCGCUAAUGGGAUCCACACGAACCCGCGACGUCCGCAAA
....((.....(((..(((.(((((..(((((.....(((((....)))))......)))))..))))).))).))).(((((((....(((.((.....)).)))))))))).)).... ( -40.10)
>DroEre_CAF1 8490 120 - 1
CGAACGACCUCGACCGUUAUCGCCGAUUCCAUGCACAGGACUAACCAGCACAAAUCGGCGGACCCGGCGCUAAAGUCUGCGUCGUUGAUGGGAUCCACACGAACCCGCGGGGUCCAAAAA
..((((........))))...(((((((...(((...((.....)).)))..)))))))(((((((((((........)))))..((.((((.((.....)).))))))))))))..... ( -42.40)
>DroYak_CAF1 14608 120 - 1
CGAACGACCUCGACCGUUACCGCUGAAUCCGUACACAGGACUAACUAGUAAAAAUCGGCGGAACCGGCGCAAAAGUCUGCGUCGUUAAUGGGAUCCACAUGAAACCACGAUGUCCAAAAA
.....(((.(((...(((.(((((((..((.......))(((....))).....))))))))))(((((((......)))))))....(((..((.....))..)))))).)))...... ( -33.90)
>consensus
CGAACGACCUCGACCGUUGCCGCUGAAUCCGUGCACAGGACUAAACAGUCCAAAUCGGCGGAACCGGCGCCAAAGUCUGCGUCGCUAAUGGGAUCCACACGAACCCGCGACGUCCAAAAA
.....(((.(((...(((.(((((((.(((.......)))((....))......))))))))))((((((........))))))....((((.((.....)).))))))).)))...... (-31.14 = -31.02 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:48 2006