Locus 4168

Sequence ID 3R_DroMel_CAF1
Location 11,329,299 – 11,329,417
Length 118
Max. P 0.999095
window6686

overview

Window 6

Location 11,329,299 – 11,329,417
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.86
Mean single sequence MFE -23.08
Consensus MFE -21.26
Energy contribution -21.54
Covariance contribution 0.28
Combinations/Pair 1.08
Mean z-score -2.38
Structure conservation index 0.92
SVM decision value 3.37
SVM RNA-class probability 0.999095
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11329299 118 + 27905053
GAGAACAAACAUAACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUUUCCUUUUUUU--UUUUUUGCCCAUGUCGUUAUGGGGUUGCCAAUACUCGUAAAGCAACCACACCCCCAU
.........((((((((((......((..((....))..))..((((((............--.))))))....)))))))))).((((((.............)))))).......... ( -22.74)
>DroSec_CAF1 68452 112 + 1
GAGAACAAACAUGACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUUUCCC--U-----UUUUUUGCCAAUGUCGUUAUGGGGUUGCCAAUACUCGUAAAGCAACCACACC-CCAU
.........((((((((((......((..((....))..))..((((((......--.-----.))))))....)))))))))).((((((.............)))))).....-.... ( -24.02)
>DroSim_CAF1 66648 114 + 1
GAGAACAAACAUAACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUUUCCCCUU-----UUUUUUGCCAAUGUCGUUAUGGGGUUGCCAAUACUCGUAAAGCAACCACACC-CCAU
.........((((((((((......((..((....))..))..((((((.........-----.))))))....)))))))))).((((((.............)))))).....-.... ( -23.02)
>DroEre_CAF1 64032 105 + 1
AAGAACAAACAUAACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUAUCAUUUU--------UUUGCCAAUGUCGUUCUGGGGUUGCCAAU------AAAGCAGCCACACC-CAAU
.........((.(((((((......((..((....))..))..((((((.......))--------))))....))))))).)).((((((....------...)))))).....-.... ( -20.40)
>DroYak_CAF1 65793 113 + 1
GAGAACAAACAUAACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUCUCCUUUUUUUUAUUUUUUGCCAAUGUCGUUAUGGGGUUGCCAAU------AAAGCAACCACACC-CCAU
.........((((((((((......((..((....))..))..((((((........))))))...........)))))))))).((((((....------...)))))).....-.... ( -25.20)
>consensus
GAGAACAAACAUAACGACAAUUUCACGCUACAAAUGUUUCGAUUAAAAAUUUCCUUUU_____UUUUUUGCCAAUGUCGUUAUGGGGUUGCCAAUACUCGUAAAGCAACCACACC_CCAU
.........((((((((((......((..((....))..))..((((((...............))))))....)))))))))).((((((.............)))))).......... (-21.26 = -21.54 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:05 2006