Locus 1696

Sequence ID 3L_DroMel_CAF1
Location 4,953,418 – 4,953,512
Length 94
Max. P 0.815594
window2615

overview

Window 5

Location 4,953,418 – 4,953,512
Length 94
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 87.35
Mean single sequence MFE -28.53
Consensus MFE -23.58
Energy contribution -23.47
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -2.26
Structure conservation index 0.83
SVM decision value 0.66
SVM RNA-class probability 0.815594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4953418 94 - 23771897
AGACAGGCCGAAA------------GGAUUC-AGAUCCAGUGCCAUU----UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
.((....((....------------))..))-.......(((((((.----..((((.......))))...........((((((......)))))).....))))))).. ( -25.70)
>DroSec_CAF1 174243 94 - 1
AGACAGGCCGAAA------------UGAUUC-AGAUCCAGUGCCAUU----UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
..(((.((((...------------......-...(((((.((....----.)))))))(((........)))......((((((......))))))......)))).))) ( -24.30)
>DroSim_CAF1 184359 94 - 1
AGACAGGCCGAAA------------GGAUUC-AGAUCCAGUGCCAUU----UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
.((....((....------------))..))-.......(((((((.----..((((.......))))...........((((((......)))))).....))))))).. ( -25.70)
>DroEre_CAF1 175336 93 - 1
AGACAGGCCAAA-------------GGAUUC-GGAUCCAGUGCCAUU----UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
..(((.((((..-------------....((-(..(((((.((....----.)))))))..)))...............((((((......))))))......)))).))) ( -25.40)
>DroYak_CAF1 180328 106 - 1
AGACAGGCCAAAAGGAUUCGGAUUCGGAUUC-GGAUCCAGUGCCAUU----UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
.............((((((((((....))))-)))))).(((((((.----..((((.......))))...........((((((......)))))).....))))))).. ( -33.80)
>DroAna_CAF1 182692 110 - 1
AGACAAGCAGUU-GGAUCCUGGCUCGGAUCCGGGAUUCAGUGCCAUUUCAGUGCCUGGGAGCGUCAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
.(((..(((.((-(((((((((.......))))))))))))))..(..(((...)))..)..))).....(((((....((((((......)))))).....))))).... ( -36.30)
>consensus
AGACAGGCCGAAA____________GGAUUC_AGAUCCAGUGCCAUU____UGCCUGGAAGCGACAGGAAGCUAUUAAAUCUACAUAAAAUUGUAGAAAUGUGUGGCAUGU
.........................(((((...))))).(((((((.......((((.......))))...........((((((......)))))).....))))))).. (-23.58 = -23.47 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:52 2006