Locus 290

Sequence ID 3L_DroMel_CAF1
Location 828,547 – 828,667
Length 120
Max. P 0.903004
window434

overview

Window 4

Location 828,547 – 828,667
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.11
Mean single sequence MFE -43.03
Consensus MFE -14.26
Energy contribution -14.65
Covariance contribution 0.39
Combinations/Pair 1.50
Mean z-score -2.61
Structure conservation index 0.33
SVM decision value 1.03
SVM RNA-class probability 0.903004
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 828547 120 + 23771897
GAGCGGGAGCUGCAGACCAUCAAGGCGAAUCUCGUGCAAUUGAGCCAGGACAUCACCAAGGUGGAGCAGGAGCGCAAGUCCUUGAAACAAAAGGAGCAGCAGCAGGCGCUGGAAAUCACU
.((((...(((((...(((((..((.((.((..(.((......)))..))..)).))..)))))..((((..(....)..))))..............)))))...)))).......... ( -36.10)
>DroVir_CAF1 4320 120 + 1
GAGCAGGAGCUGCAGCAGAUCAGAACGAACCUGCUGCAGAUCUCGCAGGACAUUGCCCAAGUGGAGCAGGAACGGAAAUCGCUGAUGCUGCGCGAGCAGCAACAGGGUUUGGAAAUAGCG
..((..((.(((((((((.((.....))..))))))))).))..)).(..(.((((((....)).)))))..)..(((((.(((.((((((....)))))).)))))))).......... ( -48.30)
>DroPse_CAF1 3761 120 + 1
GAGCGUGAGCUGCAGAGCAUCAAGACCAAUCUUCUCCAGCUGAGCGAGGACAUCACGGAGGUGGAGCAGGAGCGCAAAUCGCUCAGGGAAAAGGAGCAACAGCAGUGCCUGGAAAUCACA
....((((..(.(((.((((.........((((.(((..((((((((...((((.....))))..((......))...))))))))))).)))).((....)).))))))).)..)))). ( -38.70)
>DroSec_CAF1 2847 120 + 1
GAGCGGGAGCUGCAGACCAUCAAGGCGAAUCUUGUGCAACUGAGCCAGGACAUCACCAAGGUGGAGCAGGAGCGCAAGUCCUUGAAGCAAAAGGAGCAGCAGCAGGCGCUGGAAAUCACU
.((((...(((((......((((((.....(((((((..(((..(((((......))....)))..)))..))))))).)))))).((.......)).)))))...)))).......... ( -42.30)
>DroMoj_CAF1 4346 120 + 1
GAGCAGGAGCUGCAGCAGAUAAGGGCCAAUCUGCAGCAGCUCUCGCAGGACAUCACGAAGGUGGAGCAGGAGCGAAAGUCGCUAAUGCAGCGGGAGCAGCAGCAGAGCCUGGAAAUUGCA
...((((..((((.((((((........)))))).((.((((((((......((((....)))).(((..((((.....))))..))).)))))))).)).))))..))))......... ( -58.10)
>DroAna_CAF1 3479 120 + 1
GAACGAGAGCUCCAGAACAUCAAGGCUAAUCUGGUGCAAUUAAAUCAGGACAUCACCCAAGUGGAGCAUGAUCGAAAGGUCCUGAAGCAGAAAGAGCAGCAGCAGGAUUUGGAGAUCAGC
......((.(((((((.(.....).....((((.(((.......(((((((.((((....))))........(....)))))))).((.......)).))).)))).))))))).))... ( -34.70)
>consensus
GAGCGGGAGCUGCAGAACAUCAAGGCGAAUCUGCUGCAACUGAGCCAGGACAUCACCAAGGUGGAGCAGGAGCGCAAGUCCCUGAAGCAAAAGGAGCAGCAGCAGGGCCUGGAAAUCACA
........(((((................((((((........))))))...((((....))))..(((..((....))..)))...........))))).................... (-14.26 = -14.65 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:26 2006