Locus 3558

Sequence ID X_DroMel_CAF1
Location 9,531,167 – 9,531,273
Length 106
Max. P 0.939077
window5824

overview

Window 4

Location 9,531,167 – 9,531,273
Length 106
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 86.95
Mean single sequence MFE -32.45
Consensus MFE -23.98
Energy contribution -25.10
Covariance contribution 1.12
Combinations/Pair 1.10
Mean z-score -2.47
Structure conservation index 0.74
SVM decision value 1.30
SVM RNA-class probability 0.939077
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9531167 106 + 22224390
AGCGAGUCCAGAGAUGACCACAUGAUGACGGUGACACAUUCGCCGAUACUUUUA-------------UGCGGUCACUUGAAAAUGUGCACAAAGAAGUUUUGUAAGAAACAUCAUUGGU
.(((......(((.(((((.(((((...((((((.....))))))......)))-------------)).)))))))).......))).(((.((.(((((....))))).)).))).. ( -30.12)
>DroSec_CAF1 15004 106 + 1
AGCGAGUCCAGAGAUGACCACAUGAUGACGGUGACACAUUCGCCGAUACUUUUA-------------UGCGGUCACUUGAAAAUGCGCACAAAGAAGUUUUGUAAGAAACAUCUUUGGU
.(((......(((.(((((.(((((...((((((.....))))))......)))-------------)).)))))))).......))).((((((.(((((....))))).)))))).. ( -35.92)
>DroSim_CAF1 14509 106 + 1
AGCGAGUCCAGAGAUGACCACAUGAUGACGGUGACACAUUCGCCGAUACUUUUA-------------UGCGGUCACUUGAAAAUGCGCACAAAGAAGUUUUGUAAGAAACAUCUUUGGU
.(((......(((.(((((.(((((...((((((.....))))))......)))-------------)).)))))))).......))).((((((.(((((....))))).)))))).. ( -35.92)
>DroEre_CAF1 15326 117 + 1
AGCGAGUCCAGAGAUGACCACAUGAUGAUGGUGACAUAUUCGCCGAUACUUUUUCACUGAAUUUCUCAGCGCGCACUUAAAA-GGCGCACAAAGAAGUUUUCUAAAAAA-UGCUUUGGU
.......((((((...............((((((.....))))))....(((((....((((((((..(.((((.((....)-))))).)..))))))))....)))))-..)))))). ( -27.70)
>DroYak_CAF1 15595 105 + 1
AGCGAGUUCAGAGAUGACCACAUGAUGACGGUGACACAUUCGCCGAUACUUUUA-------------UGCGGUCACUUGAAAUUGCGCACAAAGAGAUUUUGUAUGAAC-UGCUUUGGU
.(((((((..(((.(((((.(((((...((((((.....))))))......)))-------------)).))))))))..)))).))).(((((((.(((.....))))-).))))).. ( -32.60)
>consensus
AGCGAGUCCAGAGAUGACCACAUGAUGACGGUGACACAUUCGCCGAUACUUUUA_____________UGCGGUCACUUGAAAAUGCGCACAAAGAAGUUUUGUAAGAAACAUCUUUGGU
.(((......(((.(((((.(.....).((((((.....)))))).........................)))))))).......))).((((((.(((((....))))).)))))).. (-23.98 = -25.10 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:23 2006