Locus 4478

Sequence ID 3R_DroMel_CAF1
Location 11,836,853 – 11,836,954
Length 101
Max. P 0.774565
window7321

overview

Window 1

Location 11,836,853 – 11,836,954
Length 101
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 85.36
Mean single sequence MFE -29.00
Consensus MFE -21.66
Energy contribution -20.74
Covariance contribution -0.92
Combinations/Pair 1.19
Mean z-score -1.88
Structure conservation index 0.75
SVM decision value 0.54
SVM RNA-class probability 0.774565
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11836853 101 + 27905053
UUG-------GCUGGGUGGCCAAGAUAUGUGGCUAACUUACAGAUUGCAGCUCUUCGAAGAAAAGAAAGCAAGGAGUUGGUACGGAUUGCCAUAGGGGCUUAGCAUUA
...-------(((((((..((......((((((...(.(((.((((.(.(((.(((........))))))..).)))).))).)....)))))).))))))))).... ( -26.10)
>DroSec_CAF1 16727 101 + 1
UUG-------GCUGGGUGGCCAAGAUAUGUGGCUAACUUACAGAUUGCAGCUCUUUGAAGAAAAGAAAGCAAGGAGUUUGUACGAAUUGCAAUAGGGGCUUAGCUUUA
..(-------((((((((((((.......)))))......(..((((((((((((((............))))))))..........))))))..).))))))))... ( -28.00)
>DroSim_CAF1 18231 101 + 1
UUG-------GCUGGGUGGCCAAGAUAUGUGGCUAACUUACAGAUUGCAGCUCUUCGAAGAAAAGAAAGCAAGGAGUUUGUAUGAAUUGCAAUGGGGGCUUAGCUUUA
..(-------((((((((((((.......)))))..(.((((((((.(.(((.(((........))))))..).)))))))).).............))))))))... ( -26.30)
>DroEre_CAF1 20683 107 + 1
UUGGUGGCCAGCUGGGUGGCCAAGAUACGUGGCUAAAUUACAGAUUGCAGCUCUUCAAAGAACAGAAAGCUGAGAAUUUGUACUACUUGAAAGAUGGGUUUAGCUAU-
(((((.(((.....))).))))).....((((((((((((((((((.(((((.(((........))))))))..))))))))(((.((....)))))))))))))))- ( -35.60)
>DroYak_CAF1 21253 101 + 1
UUG-------GCUGGGUGGCCAAGAUAUGUGGCCAACUUACAGAUUGCAGCUCUUCAAAGAAAGGAAAGCUGGAAAUUUGUAUGACUUGAAAGAUGGGUUUAGCUUUA
..(-------((((((((((((.......)))))).(.((((((((.(((((.(((.......))).)))))..)))))))).)..............)))))))... ( -29.00)
>consensus
UUG_______GCUGGGUGGCCAAGAUAUGUGGCUAACUUACAGAUUGCAGCUCUUCGAAGAAAAGAAAGCAAGGAGUUUGUACGAAUUGCAAUAGGGGCUUAGCUUUA
..........((((((((((((.......)))))).(.((((((((...(((.(((........))))))....)))))))).)..............)))))).... (-21.66 = -20.74 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:21 2006