Locus 7504

Sequence ID 3R_DroMel_CAF1
Location 20,056,141 – 20,056,261
Length 120
Max. P 0.533827
window12120

overview

Window 0

Location 20,056,141 – 20,056,261
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.44
Mean single sequence MFE -25.96
Consensus MFE -19.96
Energy contribution -19.40
Covariance contribution -0.56
Combinations/Pair 1.21
Mean z-score -1.45
Structure conservation index 0.77
SVM decision value 0.00
SVM RNA-class probability 0.533827
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20056141 120 + 27905053
UAAACAAAUUCAAAACUAAUGGGACCACAGCCAGACUAUUCAAAAAUAUCACCCUGCCGGAAACAAAAGUGAAGGGAGAAAUAUCGAUGUGAAUUUAUAUCGCGAGCCGCAGUAUGGUCC
.....................((((((......((.((((....))))))...((((.(....).........((((......))((((((....)))))).....))))))..)))))) ( -20.80)
>DroSec_CAF1 44607 120 + 1
UAAACAAAUACAAAACUAAUGGGACCACAGCAAGAGUAUUCAAAAAUACCACCCCGCCGGAAACAAAAGUGAAGGGAGAAAUAUCGAUGUGAGUUCACAUCGUGAGUCGCAGUACGGUCC
.....................(((((((.((..(.(((((....)))))).((((((.(....)....)))..))).((.....(((((((....)))))))....)))).))..))))) ( -28.00)
>DroSim_CAF1 46873 120 + 1
UAAACAAAUACAAAACUAAUGGGACCACAGCAAGACUAUUCAAAAAUACCACCCCGCCGGAAACAAAAGUGAAGGGAGAAAUAUCGAUGUGAGUUCAUAUCGUGAGUCGCAGUACGGUCC
.....................(((((((.((..((((..............((((((.(....)....)))..)))........(((((((....)))))))..)))))).))..))))) ( -25.70)
>DroYak_CAF1 47647 120 + 1
UAAACAAAUUAAAAACCAAUGGGACCGCAAGGAGACCAUUUAAAAAUACCUCCUUGCCGGAAACAAAAGGGAAGGGAGAAAUAUCGAUGUGAGUUCAUAUCGCAAGACACAGUACGGUCC
.....................(((((((((((((...............)))))))).(....)....................(((((((....))))))).............))))) ( -29.36)
>consensus
UAAACAAAUACAAAACUAAUGGGACCACAGCAAGACUAUUCAAAAAUACCACCCCGCCGGAAACAAAAGUGAAGGGAGAAAUAUCGAUGUGAGUUCAUAUCGCGAGUCGCAGUACGGUCC
.....................(((((.........................((((((.(....)....)))..)))........(((((((....))))))).............))))) (-19.96 = -19.40 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:33 2006