Locus 3334

Sequence ID 2L_DroMel_CAF1
Location 9,644,728 – 9,644,848
Length 120
Max. P 0.519539
window5287

overview

Window 7

Location 9,644,728 – 9,644,848
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.94
Mean single sequence MFE -43.99
Consensus MFE -28.18
Energy contribution -28.77
Covariance contribution 0.58
Combinations/Pair 1.17
Mean z-score -1.87
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.519539
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9644728 120 - 22407834
AAAGUGCCAAUCGGUUGGCGGAUCCAUUUCAUCCAGGUUGCCACUAACACGAAGAUCUAUGGAGGAAGCUCCAAAUGCAUGAAUGGCCAAUGGAAGUCCGACUGCCAGAGGCACUGUAUA
..((((((..((((((((.((..((..........))...)).))))).)))...(((.(((((....)))))...........(((...(((....)))...))))))))))))..... ( -39.20)
>DroSec_CAF1 2829 120 - 1
AAAGUGCCAAUCGGUGGGCGGAUCCAUUUCAUCCAGGUUGCCACUAACACGAAGAUCUAUGGAGGAAGCUCCAAAGGCAUGAAUCGCCAAUGGAAGUCCGACCGCCAGGGGCACUGUAUA
..((((((..(.(((((.(((((((((((((((((((((..(........)..))))).(((((....)))))..)).))))......))))))..)))).))))))..))))))..... ( -45.40)
>DroEre_CAF1 2811 120 - 1
AAAGUGCCAAUCGGUGGGCGGAUCCAUCUCAUCCAGGUUACCACUAACACGCAGGUCUAUGGAGGAGGCUCCAAAGGCAUGAAUCGCCAGUGGAAGACCGACUGCCAGGGGCACUGUGUA
..((((((..(.((..(..((((.......)))).((((.(((((......((.((((.(((((....))))).)))).)).......)))))..))))..)..)))..))))))..... ( -43.42)
>DroYak_CAF1 2799 120 - 1
AAAGUGCCAAUCGGUGGGCGGAUCCAUUUCAUCUAGGCUGCCACUAACACGCAGAUCAAUGGAGGAAGCUCCGAAGGCAUGAAUCGCCAAGGGAAGUCCGACUGCCAGGGGCACCGUAUA
...(((((..(.((..(.(((((((..(((.....((((((.........)))).))...((((....)))))))(((.......)))...)))..)))).)..)))..)))))...... ( -41.30)
>DroAna_CAF1 5512 120 - 1
GAAGUGCCAGUCGGUGGGCGGAUCUGUCAUGUCCACAUUUCCGCUAACACGCAGGUCAACGGACGAUGCUCCAAAGGCAUGAAUGGCCAGGGGAACACCCACAGCCAAUGGCACAGUGUA
...(((((((((..((((((((..(((.......)))..)))))......(((.(((....)))..))).)))..))).....((((...(((....)))...)))).))))))...... ( -45.50)
>DroPer_CAF1 24610 120 - 1
AAAGUGCCAGUCGGUGGGGGGCUCCAUCUGAUCCAAGCUCCCAGAGACGCGCAGGUCCACGGAGGAGGCGCCAAACGCGUGGAUGGCCAAGGGGAGACCCACUGCCAGGGGCACCGUGUA
...(((((.(((....(((((((............)))))))...)))(.((((((((((((.((.....))...).)))))))......(((....))).)))))...)))))...... ( -49.10)
>consensus
AAAGUGCCAAUCGGUGGGCGGAUCCAUCUCAUCCAGGUUGCCACUAACACGCAGAUCUAUGGAGGAAGCUCCAAAGGCAUGAAUCGCCAAGGGAAGACCGACUGCCAGGGGCACUGUAUA
...(((((....(((((.(((.(((...................................((((....))))...(((.......)))...)))...))).)))))...)))))...... (-28.18 = -28.77 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:00 2006