Locus 5546

Sequence ID 2L_DroMel_CAF1
Location 15,809,054 – 15,809,160
Length 106
Max. P 0.570040
window8798

overview

Window 8

Location 15,809,054 – 15,809,160
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.08
Mean single sequence MFE -27.78
Consensus MFE -22.73
Energy contribution -22.82
Covariance contribution 0.09
Combinations/Pair 1.24
Mean z-score -1.85
Structure conservation index 0.82
SVM decision value 0.07
SVM RNA-class probability 0.570040
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15809054 106 - 22407834
-----------GAGAAAGGACGAGCAAGACAAAAAGAGU-CUCUUU-UUUGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAACUUGUUUGUUUUUCAACUUA-UACGG
-----------..(((((.(((((((((.(((((((...-...)))-))))......(((((.(((...........))).)))))........))))))))))))))......-..... ( -26.20)
>DroSec_CAF1 3603 107 - 1
-----------GAGAAAAGACGAGCAAGACAGAAAGAGU-CUCUUUUUUUGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAACUUGUUUGUUUUUCAACUUA-UACGG
-----------..((((.((((((((((.(((((((((.-..)))))))))......(((((.(((...........))).)))))........))))))))))))))......-..... ( -28.90)
>DroSim_CAF1 3617 107 - 1
-----------GAGAAAGGACGAGCAAGACAGAAAGAGU-CUCUUUUUUUGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAACUUGUUUGUUUUUCAACUUA-UACGG
-----------..(((((.(((((((((.(((((((((.-..)))))))))......(((((.(((...........))).)))))........))))))))))))))......-..... ( -28.90)
>DroPer_CAF1 7633 120 - 1
AUGCCGCACAGGCGGAGGAAAGAGAGAGGCUAAAGGAGAACAGCUUUUUUGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGUCGAGAGAAUUUUGUUUGUUUUUCAACUUAGCACGG
...((((....))))..............(((((((((.....)))))))))(((((((.(((.((((((...((((((..(......)..))))))...)))))))))))))))).... ( -27.80)
>DroEre_CAF1 3693 107 - 1
-----------GAGAAAGGACGAGCAAGACAGAAAGAGU-CUCUUUUUUCGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAACUUGUUUGUUUUUCAACUUA-UACGG
-----------..(((((.(((((((((...(((((((.-...))))))).......(((((.(((...........))).)))))........))))))))))))))......-..... ( -26.30)
>DroYak_CAF1 28698 106 - 1
-----------GAGAAAGGACGAGCAAGGCAGAAAGAGU-CUCUUUUUU-GUGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAGCUUGUUUGUUUUUCAACUUA-UACGG
-----------((((((((((((((((.((((((((...-...))))))-)).))..(((((.(((...........))).))))).......)))))))).))))))......-..... ( -28.60)
>consensus
___________GAGAAAGGACGAGCAAGACAGAAAGAGU_CUCUUUUUUUGGGUUAAGUCUGGCAGAACGUUAAAAAUUGGCAGACGAAAGAAACUUGUUUGUUUUUCAACUUA_UACGG
.............((((.((((((((((..(((((((....))))))).........(((((.(((...........))).)))))........))))))))))))))............ (-22.73 = -22.82 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:48 2006