Locus 3528

Sequence ID 3R_DroMel_CAF1
Location 9,537,617 – 9,537,736
Length 119
Max. P 0.928645
window5672

overview

Window 2

Location 9,537,617 – 9,537,736
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 84.59
Mean single sequence MFE -23.90
Consensus MFE -18.54
Energy contribution -19.10
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -2.60
Structure conservation index 0.78
SVM decision value 1.19
SVM RNA-class probability 0.928645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9537617 119 + 27905053
UAUCAUUUUCGAAUACCCAUUUACUUAUUUUAAAGGUAGAUUUCGAAAUCUGUACAUUAAUUUUGAAAUGUUCUUUUAAAACUAUACGCUAAUAAAAAGCUAGGGAAAUGCCCAGAACC
...............(((.........(((((((((.(.((((((((((..........)))))))))).).)))))))))......(((.......)))..))).............. ( -19.80)
>DroSec_CAF1 14602 119 + 1
UAUAACUUUCGAAAACACAUUAACCUUCUUUAAAGGUUGAUUUCGGAAUCUGUUCAUUCAUUUUCAAAAGUUCUUUUAAAACUUUAAGCUUUCAAAAAGCUCGGGAAAUUACCAGAUUC
.........((((.....(((((((((.....)))))))))))))(((((((.......((((((.((((((.......)))))).(((((.....)))))..))))))...))))))) ( -23.00)
>DroSim_CAF1 14742 119 + 1
UAUAAUUUUCGAAAACACAUUAACCUUCUUUAAAGGUUGAUUUCGAAAUCUGUUCAUUCAUUUUCAAAAGUUCUUUUAAAACUUUUAGCUAUUAAAUAGCUAGGGAAAUGGCCAGAAUA
......(((((((.....(((((((((.....))))))))))))))))((((..((((...(..((((((((.......)))))))((((((...)))))).)..)))))..))))... ( -28.90)
>consensus
UAUAAUUUUCGAAAACACAUUAACCUUCUUUAAAGGUUGAUUUCGAAAUCUGUUCAUUCAUUUUCAAAAGUUCUUUUAAAACUUUAAGCUAUUAAAAAGCUAGGGAAAUGACCAGAAUC
......(((((((.....(((((((((.....))))))))))))))))((((..((((........((((((.......))))))..((((.....))))......))))..))))... (-18.54 = -19.10 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:27 2006