Locus 4193

Sequence ID 3L_DroMel_CAF1
Location 12,250,527 – 12,250,628
Length 101
Max. P 0.561769
window6500

overview

Window 0

Location 12,250,527 – 12,250,628
Length 101
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 81.44
Mean single sequence MFE -20.93
Consensus MFE -16.19
Energy contribution -17.45
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.77
SVM decision value 0.06
SVM RNA-class probability 0.561769
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12250527 101 + 23771897
GCCGGCCAUUUGAGCUCGCCGAGUGGUCAGGAACACACU------CACACACACAACCAAUCAACCCACCCA-CAUGGUUGCCCACUUGCCAUGCACACACCCCCACA
.(((((((((((.(....)))))))))).))........------...........................-((((((.........)))))).............. ( -20.00)
>DroSec_CAF1 4018 106 + 1
GCCGGCCAUUUGAGCUCGCCGAGUGGUCAGGAACACACUCACACUCAUUCACACAACCAAUCAACCCACCCAACCCGGUUGCCCACUUGCCAUGCACACAC--CCACA
...(((((((((.(....)))))))))).((......................(((((..................)))))......(((...))).....--))... ( -18.17)
>DroSim_CAF1 7008 98 + 1
GCCGGACAUUUGAGCUCGGCGAGUGGUCCGAAA-ACA-------UCACACACACAACCAAUCAACCCACCCAACCCGGUUGCCCACUUGCCAUGCACACAC--CCACA
...((.....((.((..(((((((((...((..-...-------)).......(((((..................))))).)))))))))..)).))...--))... ( -23.87)
>DroEre_CAF1 4117 89 + 1
GCCGGGUAUUUGAGCUUGGCGAGUGGUCAGGAACACACA------------CACAAACAG----UCCACCCA-CCCAGUUGCCCACUUUCCAUGCACACAC--CCACA
...((((...((.((.(((.((((((.(((((.......------------.........----)))((...-....)))).)))))).))).)).)).))--))... ( -21.69)
>consensus
GCCGGCCAUUUGAGCUCGCCGAGUGGUCAGGAACACACU______CACACACACAACCAAUCAACCCACCCA_CCCGGUUGCCCACUUGCCAUGCACACAC__CCACA
...((.....((.((..(((((((((...(.....).................(((((..................))))).)))))))))..)).)).....))... (-16.19 = -17.45 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:28 2006