Locus 3305

Sequence ID 3R_DroMel_CAF1
Location 8,854,858 – 8,854,976
Length 118
Max. P 0.773795
window5333

overview

Window 3

Location 8,854,858 – 8,854,976
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 80.45
Mean single sequence MFE -30.69
Consensus MFE -20.79
Energy contribution -20.97
Covariance contribution 0.18
Combinations/Pair 1.34
Mean z-score -1.73
Structure conservation index 0.68
SVM decision value 0.54
SVM RNA-class probability 0.773795
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8854858 118 - 27905053
GCUUAAGCAGAGGCUUAUUCAAAAGUAUGAGGACCAGUUGGACAGGCAAAAAGAAAGCCAACAGCGAAACGCGUUAGCCAUGAAGCAAAAGUGUUUCGAUCUGCUGAAGCAGUUCCUU
((((.(((((((((((.((((......))))..((....)).............))))).....((((((((....((......))....)))))))).)))))).))))........ ( -35.50)
>DroVir_CAF1 30719 118 - 1
CUUGCAAGCACAGCUUGUGCAAAAAUAUGAAGCAAAGCUGGCCAAACAGGAGAGAGCCCAUCAAGUAAAGGUUUCACAACUGAAACACAAAUGUUUCGAGUUGCUGCAGCAGUGCCUA
.((((..((.((((((.(((...........)))))))))))....(((..((((.((...........)))))).(((((((((((....)))))).))))))))..))))...... ( -29.40)
>DroSec_CAF1 28973 118 - 1
GCUGAAGCAGAGGCUUAUUCAAAAGUAUGAGGACCAGUUGGACAGGCAAAAAGAAAGCGAACAGCGAAAUGCUUUAGCCAUGAAGCACAAGUGUUUCGAUCUGUUUAAGCAGUUCCUU
(((((((((...((((.(((((..((......))...))))).)))).........((.....))....)))))))))...((((((....))))))((.((((....)))).))... ( -32.70)
>DroSim_CAF1 28802 118 - 1
GCUCAAGCAGAGGCUUAUUCAAAAGUAUGAGGACCAGUUGGACAGGCAAAAAGAAAGCGAACAGCGAAACGCUUUAGCCAUGAAACACAAGUGUUUCGAUCUGUUUAAGCAGUUCCUU
(((.(((((((((((..(((((..((......))...)))))...........((((((..........)))))))))).(((((((....))))))).))))))).)))........ ( -30.90)
>DroEre_CAF1 29620 118 - 1
GCUUAAGCAGAGGCUAAUUCAAAAGUAUGAGGACCAGUUGCUAAGACAAGAAGAAAGCCAACAGAGAAACGCUUUAGCCAUGAAGCAAAAGUGCUUCGAUCUGUUGAAGCAGUUCCUC
((((.((((((((((((((((......)))).....((((((.............)).))))...........)))))).(((((((....))))))).)))))).))))........ ( -31.42)
>DroYak_CAF1 30103 118 - 1
GCUUAAGCAGAGGCUAAUUCAAAAGUAUGAGGACCAGUUGAUCAGACAAAAAGAAAGCCAACAGAGAAACGCUAUAGCCAUGAAGCAGAAGUGUUUCGAUCUUUUAAAGCAGUUCCUU
((((.((.(((((((..((((......)))).....(((.....)))........))))......((((((((...((......))...))))))))..))).)).))))........ ( -24.20)
>consensus
GCUUAAGCAGAGGCUUAUUCAAAAGUAUGAGGACCAGUUGGACAGACAAAAAGAAAGCCAACAGCGAAACGCUUUAGCCAUGAAGCACAAGUGUUUCGAUCUGUUGAAGCAGUUCCUU
((((.((((((((((......................(((......)))....(((((............))))))))).(((((((....))))))).)))))).))))........ (-20.79 = -20.97 +   0.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:01 2006