Locus 1342

Sequence ID 3L_DroMel_CAF1
Location 3,889,529 – 3,889,630
Length 101
Max. P 0.818623
window2093

overview

Window 3

Location 3,889,529 – 3,889,630
Length 101
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 78.83
Mean single sequence MFE -38.60
Consensus MFE -23.63
Energy contribution -24.72
Covariance contribution 1.09
Combinations/Pair 1.11
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value 0.67
SVM RNA-class probability 0.818623
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3889529 101 + 23771897
GCUGCUGCCUCUGGUUCA------AGAAUGGCCGUAGCCGGAGGUAUUCUGCAUAGGGAGGAGACCCCUCCUCCGAAUCCCAUAACAGAAAAGCCUGAGGAUCCUAA
(((((.((((((......------)))..))).)))))...(((.(((((......(((((((....)))))))...........(((......))))))))))).. ( -35.00)
>DroPse_CAF1 601 101 + 1
GCCAUGGCAUCGGGCCCAGGGCCACGUAAGGCAGUUGCCGGCGGAGUGCUGCACAGGGAGGAGACGCCUCCCCCACUCGC---CAAGGAGAAGUCCACCGA---GGA
.((.((((....((((...)))).(((..(((....))).)))(((((.......((((((.....)))))).)))))))---)).)).....(((.....---))) ( -39.00)
>DroSec_CAF1 578 101 + 1
GCUGCUGCCUCUGGUUCC------AGAAUGGCCGUAGCCGGAGGUAUUCUGCACAGGGAGGAGACUCCUCCUCCGAAUCCCAUAACAGAAAAGCCUGAGGACCCUAA
(((((.(((((((....)------)))..))).)))))((((((...........(((((....)))))))))))..(((.....(((......))).)))...... ( -38.10)
>DroSim_CAF1 578 101 + 1
GCUGCUGCCUCUGGUUCC------AGAAUGGCCGUAGCCGGCGGUAUUCUGCACAGGGAGGAGACUCCACCUCCGAAUCCCAUAACAGAAAAGCCUGAGGACCCUAA
(((((.(((((((....)------)))..))).))))).(((....(((((....((((((((.......))))...))))....)))))..)))............ ( -36.20)
>DroEre_CAF1 582 101 + 1
GCUGCUGCCUCUGGUUCC------AGAAUGGCCGUAGCCGGAGGUAUUCUGCACAGGGAGGAGACCCCUCCUCCGAGUCAAAUUAACGACAAGACUACGGAUUCUGA
(((((.(((((((....)------)))..))).)))))((((((((.(((......(((((((....)))))))..(((........))).))).)))...))))). ( -38.70)
>DroYak_CAF1 581 101 + 1
GCUGCUGCCUCUGGUUCC------AGAAUGGCCGUAGCCGGAGGUGUUCUGCACAGGGAGGAGACUCCUCCUCCGAAUACCAUAACCGAAAAGCCUGCGGAUCCGGA
(((((.(((((((....)------)))..))).)))))(((((((((((.......(((((((....))))))))))))))....(((.........))).)))).. ( -44.61)
>consensus
GCUGCUGCCUCUGGUUCC______AGAAUGGCCGUAGCCGGAGGUAUUCUGCACAGGGAGGAGACUCCUCCUCCGAAUCCCAUAACAGAAAAGCCUGAGGAUCCUAA
((...((((((((((.....................))))))))))....))....(((((((....)))))))................................. (-23.63 = -24.72 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:12 2006