Locus 3353

Sequence ID 3L_DroMel_CAF1
Location 9,823,649 – 9,823,769
Length 120
Max. P 0.680458
window5232

overview

Window 2

Location 9,823,649 – 9,823,769
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.36
Mean single sequence MFE -30.26
Consensus MFE -23.30
Energy contribution -23.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.77
SVM decision value 0.30
SVM RNA-class probability 0.680458
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9823649 120 + 23771897
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCAGAAAUUCUGGACAUGUCUUAUUGGCUGGGCUGGCUUUU
...(((((((..........((((((....))))))..((((((........))))))(((((.....((((((....))))))......(((....)))..))))).)))))))..... ( -35.60)
>DroSec_CAF1 117687 120 + 1
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCUGAAAUUCUGGACAUGUCUUAUUGGCUGCGCUGGCUUUU
...(((((..((((......((((((....)))))).....))))..........(..(((((........(((....))).........(((....)))..)))))..))))))..... ( -30.90)
>DroSim_CAF1 120934 120 + 1
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCUGAAAUUCUGGACAUGUCUUAUUGGCUGCGCUGGCUUUU
...(((((..((((......((((((....)))))).....))))..........(..(((((........(((....))).........(((....)))..)))))..))))))..... ( -30.90)
>DroEre_CAF1 120477 111 + 1
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCUGAAAUUUUGUGCAAGUCUUAUAG---------GCUUUU
((((.((.((((........((((((....))))))..((((((........))))))(((((......))))).)))))).))))........(((((.....)---------)))).. ( -26.30)
>DroYak_CAF1 130694 111 + 1
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCAGAAAUUUUGUUCAUGUCUUAUAG---------GCUUUU
.....(((((((....(.(((((....))))).)...))).))))....(((((.(((..(((.....((((((....))))))....)))..))).....))))---------)..... ( -27.60)
>consensus
UUUCCGGUCUGAUUACGCUCAUGAUCUCAUGAUCAUCUCACGAUCUCCUCCUGUUGUGGCCAACUUUGUUUGGCUUCGGCCUGAAAUUCUGGACAUGUCUUAUUGGCUG_GCUGGCUUUU
((((.((.((((........((((((....))))))..((((((........))))))(((((......))))).)))))).)))).................................. (-23.30 = -23.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:53 2006