Locus 5720

Sequence ID 3R_DroMel_CAF1
Location 14,940,028 – 14,940,132
Length 104
Max. P 0.524686
window9360

overview

Window 0

Location 14,940,028 – 14,940,132
Length 104
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 89.00
Mean single sequence MFE -33.83
Consensus MFE -22.71
Energy contribution -23.40
Covariance contribution 0.69
Combinations/Pair 1.11
Mean z-score -1.80
Structure conservation index 0.67
SVM decision value -0.02
SVM RNA-class probability 0.524686
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14940028 104 + 27905053
AACGGCAGACGCUGAAGAAGUUGUGGAAAAAUGCCACUCCAUUGUUGAUGUUGAUGGAAACGCUUCAGUUUGGUUCGCUUCGGUCGAACGU---CGUUCAGUCAACG
((((((....(((((((..(((((((.......))))(((((((.......)))))))))).)))))))...((((((....).)))))))---))))......... ( -33.90)
>DroSec_CAF1 75854 104 + 1
AACGGCAGAAGCUGAAGAAGUUGUGGAAAAAUGCCACUCCAUUGUUGAU---GAUGGAAACGCUUCAGUUUGGUUCGCUUCGGACGGACGUCGUCGUUCAGUCAACG
((((((..(((((((((..(((((((.......))))((((((......---))))))))).))))))))).((((((....).)))))...))))))......... ( -36.00)
>DroSim_CAF1 68674 101 + 1
AACGGCAGAAGCUGAAGAAGUUGUGGAAAAAUGCCACUCCAUUGUUG------AUGGAAACGCUUCAGUUUGGUUCGCUUCGGUCGGACGUCGUCGUUCAGUCAACG
((((((..(((((((((..(((((((.......))))((((((...)------)))))))).))))))))).((((((....).)))))...))))))......... ( -34.50)
>DroYak_CAF1 72941 98 + 1
UGCGGUAGAAGCUGACGAAGUGGUGGAAAAAUGCCACUCCAUUGUUG------AUGGAGACGCUUUAGUUUGGUUGGCUUCGGUCGGACAU---CGUUCAGUCAACG
..(((..(((((..((((((((.(((.......)))(((((((...)------)))))).))))))......))..)))))..)))(((..---......))).... ( -30.90)
>consensus
AACGGCAGAAGCUGAAGAAGUUGUGGAAAAAUGCCACUCCAUUGUUG______AUGGAAACGCUUCAGUUUGGUUCGCUUCGGUCGGACGU___CGUUCAGUCAACG
...(((..(((((((((.....((((.......))))((((((.........))))))....)))))))))..............(((((....))))).))).... (-22.71 = -23.40 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:47 2006