Locus 5645

Sequence ID 3L_DroMel_CAF1
Location 15,496,674 – 15,496,834
Length 160
Max. P 0.961205
window8924 window8925

overview

Window 4

Location 15,496,674 – 15,496,794
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -32.03
Consensus MFE -29.41
Energy contribution -29.30
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -2.15
Structure conservation index 0.92
SVM decision value 0.74
SVM RNA-class probability 0.838571
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15496674 120 - 23771897
CAGCUGUGCCUGUGGCUUUUGUGUGUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAAAUAUGUGCUCGUGUUUAGCUAUUUCGAUAAACGAUGGGCA
.....(((((.(((((((((((((.(((((.(........).)))))...))))))))......))))))))))...........((((((((((((.(......).))))).))))))) ( -34.10)
>DroSec_CAF1 37841 120 - 1
CAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAAAUAUGUGCUCGUAUUCAGCUAUUUCGAUAAACGAUGGCCA
.(((((((((.(((((...(((((((((((.(........).)))))))))))...........)))))))))......((((((....)))))))))))...(((.....)))...... ( -32.44)
>DroSim_CAF1 38039 118 - 1
CAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAA-AAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAAAUAUGUGCUCGUAUUCAACUAUUUCGAUAAACGAUGGC-A
..((((((((.(((((...(((((((((((.(...-....).)))))))))))...........)))))))))).....((((((....))))))........(((.....))).)))-. ( -29.54)
>consensus
CAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAAAUAUGUGCUCGUAUUCAGCUAUUUCGAUAAACGAUGGCCA
.(((((((((.(((((((((((((.(((((.(........).)))))...))))))))......)))))))))......((((((....)))))))))))...(((.....)))...... (-29.41 = -29.30 +  -0.11)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 15,496,714 – 15,496,834
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -31.93
Consensus MFE -31.47
Energy contribution -31.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.99
SVM decision value 1.52
SVM RNA-class probability 0.961205
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15496714 120 - 23771897
GUUUAAUGAUAUGCUAUUAUUAGCGGCACGUAUGAAAAAGCAGCUGUGCCUGUGGCUUUUGUGUGUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAA
............((((....))))((((((..((......))..))))))((((..((((((((.(((((.(........).)))))...)))))))).))))(((....)))....... ( -31.30)
>DroSec_CAF1 37881 120 - 1
GUUUAAUGAUAUGCUAUUAUUAGCGGCACGUAUGAAAAAGCAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAA
............((((....))))((((((..((......))..))))))((((..((((((((((((((.(........).))))))))))).)))..))))(((....)))....... ( -32.40)
>DroSim_CAF1 38078 119 - 1
GUUUAAUGAUAUGCUAUUAUUAGCGGCACGUAUGAAAAAGCAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAA-AAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAA
............((((....))))((((((..((......))..))))))((((..((((((((((((((.(...-....).))))))))))).)))..))))(((....)))....... ( -32.10)
>consensus
GUUUAAUGAUAUGCUAUUAUUAGCGGCACGUAUGAAAAAGCAGCUGUGCCUGUGGCUUUUGUGUUUUCCUCGGAAAAAUACUAGGAAAAUGCAUAAAAACAUAUGCCAUGGCAUCUAAAA
............((((....))))((((((..((......))..))))))((((..((((((((((((((.(........).))))))))))).)))..))))(((....)))....... (-31.47 = -31.80 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:31 2006