Locus 3646

Sequence ID 3R_DroMel_CAF1
Location 9,851,774 – 9,851,879
Length 105
Max. P 0.887543
window5861

overview

Window 1

Location 9,851,774 – 9,851,879
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 91.43
Mean single sequence MFE -25.01
Consensus MFE -20.38
Energy contribution -20.30
Covariance contribution -0.08
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.81
SVM decision value 0.95
SVM RNA-class probability 0.887543
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9851774 105 + 27905053
GAGCUUUGGAAUCCAGCAUUUUUUGAGAGCGAAGAACCGCAGUUCGAACUACAAAUGAGAUGUUCUCAAAAAGUAGCUACAUCUCAUAAUGGAAUUUGGUAGAAA
...(((..((.((((......((((((.(((......)))..))))))......(((((((((.(((.....).))..)))))))))..)))).))..).))... ( -24.00)
>DroSec_CAF1 56216 105 + 1
GAGCUUUGGAAUCCAGCAUUUUUUGAGAGCGAAGAACCACAGUUCGAACUACAAAUGAGAAGUUCUCAAGAAGUAGCUACAUCUGAUAAAGGAAUUUGGUAGAAA
...(((..((.(((((((((((((((((((...((((....))))...((.(....)))..))))))))))))).))).(....).....))).))..).))... ( -24.90)
>DroSim_CAF1 58615 105 + 1
GAGCUUUGGAAUCCAGCAUUUUUUGAGAGCGAAGAACCACAGUUCGAACUACAAAUGAGAAGUUCUCAAAAAGUAGCUACAUCUCAUAAAGGAAUUUGGUAGAAA
...(((..((.(((((((((((((((((((...((((....))))...((.(....)))..))))))))))))).)))............))).))..).))... ( -23.60)
>DroEre_CAF1 57201 105 + 1
GAGCUUUGGAAUCGAGCAUUUUUUGAGAGCGAAGAACCACAGUUCGAACUACAAAAGUGAAGUUCUCAAAAAGUAGCUACGUCUCAUACUGGAAUUGGGUGAUAA
........((..((((((((((((((((((...((((....))))..(((.....)))...))))))))))))).))).))..)).((((.......)))).... ( -25.70)
>DroYak_CAF1 57830 105 + 1
GAGCUUUGGAGUCCAGCAUUUUUUGAGAGCGUAGAACCACAGUUCGAGCUACAAAAGUGAAGUUCUCCAAAAAUAGCUACAUCUCAUAAUGGAAUUUGAUGAAAA
.((((((((((..(..(((((((....(((...((((....))))..)))..)))))))..)..))))))....)))).((((..............)))).... ( -26.84)
>consensus
GAGCUUUGGAAUCCAGCAUUUUUUGAGAGCGAAGAACCACAGUUCGAACUACAAAUGAGAAGUUCUCAAAAAGUAGCUACAUCUCAUAAUGGAAUUUGGUAGAAA
.....(..((.(((((((((((((((((((...((((....))))......(......)..))))))))))))).)))............))).))..)...... (-20.38 = -20.30 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:28 2006