Locus 5716

Sequence ID 2L_DroMel_CAF1
Location 16,267,741 – 16,267,843
Length 102
Max. P 0.679851
window9056

overview

Window 6

Location 16,267,741 – 16,267,843
Length 102
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 70.76
Mean single sequence MFE -22.78
Consensus MFE -2.92
Energy contribution -6.36
Covariance contribution 3.44
Combinations/Pair 1.25
Mean z-score -1.74
Structure conservation index 0.13
SVM decision value 0.30
SVM RNA-class probability 0.679851
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16267741 102 + 22407834
CCCUUCACUCCCCAAAUUUUCAGUGAAAACUGGGGAAAUCUGUAGCUGG-GAGAAUGGGGAAUAAAAGGAAUGCCGUCAUCGAAAAUGGCAAAAUGCGA-AAAA
.((((...((((((..((..((((....))))..))..(((.(.....)-.))).))))))....))))..((((((........))))))........-.... ( -30.40)
>DroSec_CAF1 13453 101 + 1
CCCCUCAUUCAACAAAUUUUCAGUGAAAACUGGGGAAAUCUGUAGCUGG-GAGUAUG-GGAAUAAAAGGAAUGCCGUCAUCGAAAAUGGCAAAAUUCGA-AAAA
.(((..((((......((..((((....))))..))...((......))-))))..)-))........(((((((((........))))))...)))..-.... ( -23.20)
>DroSim_CAF1 9105 102 + 1
CCCCUCAUUCAACAAAUUUUCAGUGAAAACUGGGGAAAUCUGUAGCUGGGGAGUAUG-GGAAUAAAAGGAAUGCCGUCAUCGAAAAUGGCAAAAUUCGA-AAAA
.(((..((((......((..((((....))))..))..(((......)))))))..)-))........(((((((((........))))))...)))..-.... ( -23.90)
>DroEre_CAF1 9269 89 + 1
CCUUA--UU----GC-------CCCAAAACUGUGGAGAUCUGCCGCUUU-GGGAGAG-GAAACCAAAGGAAGGCUGUCAUCGAAAAUGGGAAAAAUAGAUAAAA
..(((--((----..-------((((......((..(((..(((.((((-((.....-....))))))...))).)))..))....))))...)))))...... ( -21.30)
>DroYak_CAF1 10123 85 + 1
CCCUU--UU----AUAUUUUCGGUGAAAAUUGUGGAGAUUUGCCCCUUU-GGGA-------AUAAAAGCAAUGCCGUCAUUGAAUA-----ACACAAGCUAAAA
.....--..----.....((((((((..(((((.........(((....-))).-------......)))))....))))))))..-----............. ( -15.09)
>consensus
CCCUUCAUUC__CAAAUUUUCAGUGAAAACUGGGGAAAUCUGUAGCUGG_GAGAAUG_GGAAUAAAAGGAAUGCCGUCAUCGAAAAUGGCAAAAUUCGA_AAAA
................((..((((....))))..))...................................((((((........))))))............. ( -2.92 =  -6.36 +   3.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:55 2006