Locus 1708

Sequence ID 3L_DroMel_CAF1
Location 4,979,066 – 4,979,169
Length 103
Max. P 0.540712
window2636

overview

Window 6

Location 4,979,066 – 4,979,169
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.35
Mean single sequence MFE -37.35
Consensus MFE -27.96
Energy contribution -28.63
Covariance contribution 0.67
Combinations/Pair 1.17
Mean z-score -1.21
Structure conservation index 0.75
SVM decision value 0.01
SVM RNA-class probability 0.540712
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4979066 103 - 23771897
CUAACACCAUUGUGCUCUGCUCCAGUCAGCUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACAGGAGCCGGAUGGAGCGAGUCCU---GCGGGACGGGA-------------GUCC-UU
...........(..(((.((((((..(.(((.(((..((((((((....)...)))))))..))).))).)..)))))))))..).---..(((((....-------------))))-). ( -38.80)
>DroSec_CAF1 199803 103 - 1
CUAACACCAUUGUGCUCUGCUCCAGUCAGCUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACAGGAGCCGGAUGGAGCGAGUCCU---UCGGGACAGGA-------------GUCC-UU
...........(..((((((((((..(.(((.(((..((((((((....)...)))))))..))).))).)..))))))..((((.---...)))).)))-------------)..)-.. ( -40.90)
>DroSim_CAF1 219190 103 - 1
CUAACACCAUUGUGCUCUGCUCCAGUCAGCUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACAGGAGCCGGAUGGAGCGAGUCCU---GCGGGACAGGA-------------GUCC-UU
...........(..((((((((((..(.(((.(((..((((((((....)...)))))))..))).))).)..))))))..((((.---...)))).)))-------------)..)-.. ( -37.90)
>DroEre_CAF1 202936 105 - 1
C-----CCGUUGUGCUCCGCUCCAGUCAGCUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACGGGAGUCGGAUGGAGCGAGUCCU---GUGGGACAGGAGACAGGA------GUCC-UU
.-----.....(..((((((((((((((.((.(((.(.....).))).))))))...((((((....))))))))))))..((((.---...)))).(....).)))------)..)-.. ( -40.50)
>DroYak_CAF1 207016 104 - 1
CUAACACCAUUGUGCUGCGCUACAGUCAACUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACAGGAGCCGGAUGGAGAGAGUCCU---GUGGGACAGGA-------------GUCCUUU
......(((((..(((.(.....((....)).(((..(...(..(....)..)...)..)))..).)))..)))))((.((.((((---(.....)))))-------------.)))).. ( -28.40)
>DroAna_CAF1 209032 114 - 1
UUCCCGGCAUUGU------CUCCAGUCAGCUAUUGAGGGAAUUGCGAAAGUGACAAUUUCGACAGCUCCCGGAUGGAGUUGGUCUUCGGGUGGGUGAGCAGGUCCGGGUGCAGGUCCAUC
..(((((..(((.------(((.....((((.((((((...(..(....)..)...)))))).))))((((..(((((.....)))))..)))).))))))..)))))............ ( -37.60)
>consensus
CUAACACCAUUGUGCUCUGCUCCAGUCAGCUAUUGGGGGAAUUGCGAAAGUGACAAUUUCGACAGGAGCCGGAUGGAGCGAGUCCU___GCGGGACAGGA_____________GUCC_UU
......((.........(((((((..(.(((.(((..((((((((....)...)))))))..))).))).)..))))))).(((((.....))))).))..................... (-27.96 = -28.63 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:12 2006