Locus 2828

Sequence ID 2R_DroMel_CAF1
Location 9,826,483 – 9,826,573
Length 90
Max. P 0.646311
window4675

overview

Window 5

Location 9,826,483 – 9,826,573
Length 90
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 90.52
Mean single sequence MFE -26.56
Consensus MFE -20.24
Energy contribution -20.28
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.66
Structure conservation index 0.76
SVM decision value 0.23
SVM RNA-class probability 0.646311
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9826483 90 + 20766785
UGGGAUUUGAAAGCCGAAA-------GGCGAAAGCGGAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGUAGUUU
............(((....-------)))..(((((((..(((.((....))...((((..(........)..))))))).)))))))......... ( -25.90)
>DroSec_CAF1 64184 90 + 1
UGGGAUUUGAAAGGCGAAA-------GCCGAAAGCCGAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGUAGUUU
..(((((.....(((....-------))).....(((.(((((.((....))...((.((....)).)).))))).))))))))............. ( -27.40)
>DroSim_CAF1 65710 90 + 1
UGGGAUUUGAAAGGCGAAA-------GCCGAAAGCCGAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGUAGUUU
..(((((.....(((....-------))).....(((.(((((.((....))...((.((....)).)).))))).))))))))............. ( -27.40)
>DroEre_CAF1 69023 90 + 1
UGGGAUCCGAAUGCCCAAU-------GCCGAAAGCCGAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGCAGUUC
((((.........)))).(-------(((..((((..((((((.((....))...((((..(........)..)))).)))))))))).)))).... ( -28.20)
>DroYak_CAF1 66181 97 + 1
UGGGAUCCGAAAACCAAAGGACGAGAGCCGAAAGCCAAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGUAGUUU
............(((...((.(....)))..((((..((((((.((....))...((((..(........)..)))).)))))))))).)))..... ( -23.90)
>consensus
UGGGAUUUGAAAGCCGAAA_______GCCGAAAGCCGAGAUCCGACGGAAGUAAGGUGGAACAAUUGACGGGAUCGCGGGAUCUGCUUAGGUAGUUU
..........................(((..((((..((((((.((....))...((((..(........)..)))).)))))))))).)))..... (-20.24 = -20.28 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:28 2006