Locus 1204

Sequence ID 3R_DroMel_CAF1
Location 3,629,485 – 3,629,605
Length 120
Max. P 0.797130
window1970

overview

Window 0

Location 3,629,485 – 3,629,605
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.83
Mean single sequence MFE -37.07
Consensus MFE -20.76
Energy contribution -22.18
Covariance contribution 1.42
Combinations/Pair 1.33
Mean z-score -1.83
Structure conservation index 0.56
SVM decision value 0.60
SVM RNA-class probability 0.797130
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3629485 120 + 27905053
GAACAACCUUGAGCACAUACUCCACAUUGCCGAAAGGAAGUCUACAGGUGGCUGGCAGAUUUUCAGGCAGCUGAAAAUUGAAGUCACCCAAUCGAAAGGUACCAUUCUCUAGCUGAAGUA
.......(((.(((...............((....)).........(((((((....(((((((((....)))))))))..)))))))..(((....)))...........))).))).. ( -33.90)
>DroSec_CAF1 3600 120 + 1
GGACAACCUUGAGCACAUACUUCACAUUGCCGAAAGGAAGGCUACAGGUGGCAGGCAGAUUUUCAGGGAGCUGAAAAUUGAAGUCACCCAAUCGGAAAGUACCAGGCUCUAGCUGAAGUA
.......((.((((...(((((..(((((((....)).........((((((.....(((((((((....)))))))))...)))))))))).)..)))))....)))).))........ ( -35.50)
>DroSim_CAF1 4924 120 + 1
GAACAACCUUGAGCACAUACUCCACAUUGCCGAAAGGAAGGCUACAGGUGGCUGGCAGAUUUUCAGGGAGCUGAAAAUUGAAGUCACCCAAUCGGAAAGUACCAGGCUCCAGUUGAAGUA
...((((...((((...((((((.....(((........)))....(((((((....(((((((((....)))))))))..))))))).....)))..)))....))))..))))..... ( -39.40)
>DroEre_CAF1 4647 120 + 1
GUACGACCUUCAGCACAUAGUCCACACUGCCAAAGGGAAGCCUGCAGCUGGCUGGCAGGUUUUCAGGCAGCUGAAACUCGAAGUCACCCAGUGGGAAGGUGCCAGGCUGCAGGCGAAUGG
...((.(((.((((.(((..(((.(((((......((((((((((((....)).)))))))))).((..(((.........)))..))))))))))..)))....)))).)))))..... ( -45.20)
>DroYak_CAF1 4335 120 + 1
GAACAACCUUUAGCGUAUACUCCACAUUGCCAAAAGGAAGCCUACAGGUGGCUGGAAGAUGUUCAGGAAACUGAAACUUAAAGUCACCCAAUCGAAAAGUACCAGGCUCUAGCCGAAGAG
.......(((..((......(((............)))(((((...(((((((..(((...(((((....))))).)))..))))))).....(........))))))...))..))).. ( -33.50)
>DroPer_CAF1 3250 120 + 1
UAAUCACUUUAAGGGUAUACUCGACAGAGCCAUGACCAACUCGACAAGUGGCUGGCAGACUUUCGGGAAGUUCAAAGUCAAAGUUCCACAGUUGGGUAAUGCCCGGAAGUAGGCGUUGUC
.....(((((..(((((((((((((...((((.(.(((.((.....)))))))))).((((((.((.....))))))))...........))))))).)))))).))))).......... ( -34.90)
>consensus
GAACAACCUUGAGCACAUACUCCACAUUGCCAAAAGGAAGCCUACAGGUGGCUGGCAGAUUUUCAGGAAGCUGAAAAUUGAAGUCACCCAAUCGGAAAGUACCAGGCUCUAGCCGAAGUA
.......((.((((...((((...(((((((....)).........(((((((....(((((((((....)))))))))..))))))))))).)...))))....)))).))........ (-20.76 = -22.18 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:34 2006