Locus 4220

Sequence ID 3L_DroMel_CAF1
Location 12,355,718 – 12,355,811
Length 93
Max. P 0.851665
window6538

overview

Window 8

Location 12,355,718 – 12,355,811
Length 93
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 81.47
Mean single sequence MFE -28.15
Consensus MFE -17.05
Energy contribution -19.00
Covariance contribution 1.95
Combinations/Pair 1.08
Mean z-score -2.62
Structure conservation index 0.61
SVM decision value 0.79
SVM RNA-class probability 0.851665
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12355718 93 - 23771897
UUCGGGAGCU------CAGCAGCUCCCAGCUCCACAAAUGGCCAAUUAAUCAGAGAUGGGGUCAUAAAUCAGACGAAUGUCGUUGAAAAGUGGCUCUAA
...(((((((------....)))))))((..((((..((((((.(((.......)))..))))))...((((.((.....))))))...))))..)).. ( -29.60)
>DroSec_CAF1 40819 93 - 1
UUCGGGAGCU------CAGCAGCUCCCAGCCCCACAAAUGGCCAAUUAAUCAGAGAUGGGGUCAUAAAUCAGCCGAAAGUCGUUGAAAAGUGGCUCUAA
((((((((((------....))))))).(((........)))..........))).(((((((((...((((((....)..)))))...))))))))). ( -32.40)
>DroSim_CAF1 43828 93 - 1
UUCGGGAGCU------CAGCAGCUCCCAGCCCCACAAAUGGCCAAUUAAUCAGAGAUGGGGUCAUAAAUCAGCCGAAUGUCGUUGAAAAGUGGCUCUAA
((((((((((------....))))))).(((........)))..........))).(((((((((...(((((........)))))...))))))))). ( -30.90)
>DroEre_CAF1 41190 92 - 1
UUCGGGAGC-------CAGUAGCUCCCAACCCCACAAAUGGCCAAUUAAUCAGAGAUGGGGUCAUAAAUCAGCCGAAUGCCGUUGAAAAGUGGCCAUAA
...((((((-------.....))))))....((((..((((((.(((.......)))..))))))...(((((........)))))...))))...... ( -27.80)
>DroYak_CAF1 41392 93 - 1
UUCGGGAGCU------CAGUAGCUCCCAACCCCACAAAUGGCCAAUUAAUCAGAGAUGGGCCCAUAAAUCAGGCGAAUGUCGUUGAAAAGUGGCUAUAA
...(((((((------....)))))))..........(((((((.....((((.((((..(((........)).)..)))).))))....))))))).. ( -30.00)
>DroAna_CAF1 38770 81 - 1
CCCAGGAACAUGAAACUGGGAGCGCCUCCCCCCACA-----CCAAUUAAUCAGA-AUGGGAUCAUAAAUCAGACG-------UUCAAACGUUCC-----
....(((((........(((((...)))))......-----...........((-(((.(((.....)))...))-------)))....)))))----- ( -18.20)
>consensus
UUCGGGAGCU______CAGCAGCUCCCAGCCCCACAAAUGGCCAAUUAAUCAGAGAUGGGGUCAUAAAUCAGCCGAAUGUCGUUGAAAAGUGGCUCUAA
...((((((............))))))....((((..((((((.(((.......)))..))))))...((((.((.....))))))...))))...... (-17.05 = -19.00 +   1.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:08 2006