Locus 248

Sequence ID 2L_DroMel_CAF1
Location 724,599 – 724,689
Length 90
Max. P 0.999874
window399 window400

overview

Window 9

Location 724,599 – 724,689
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 94.56
Mean single sequence MFE -32.76
Consensus MFE -31.52
Energy contribution -31.40
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -2.31
Structure conservation index 0.96
SVM decision value 4.34
SVM RNA-class probability 0.999874
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 724599 90 + 22407834
ACCAGCAGCAAUCUUGGGAUUGUAUUUAGAUGAUGCUGCAGUCUGCCGGGGAUGCAGUCUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.((((((....))))(((((.....))))).))..((((((((((((...))))))).))))).....)))))........... ( -32.70)
>DroSec_CAF1 103229 87 + 1
ACCAGCAGCAAUCUUGGGAUUGUAUUUAGA---UGCUGCGGUCUGCCGGGGAUGCAGUCUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.((((((....)))))).......---........((((((((((((...))))))).))))).....)))))........... ( -32.60)
>DroSim_CAF1 108400 87 + 1
ACCAGCAGCAAUCUUGGGAUUGUAUUUAGA---UGCUGCAGUCUGCCGGGGAUGCAGUCUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.((((((....)))))).......---........((((((((((((...))))))).))))).....)))))........... ( -32.60)
>DroEre_CAF1 114077 87 + 1
ACCAGCAGCAAUCUCGGGAUUGUAUUUAGA---UGGUGGAGUCCGCCGGGGAUGCAGUUUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.....((((((((((((((((...---((((((...)))))).))))))))..))).)).))).....)))))........... ( -30.90)
>DroYak_CAF1 109506 87 + 1
ACCAGCAGCAAUCUCGGGAUUGUAUUCAGA---UGCUGGAGUCUGCCGGAGAUGCAGUCUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.((((((....)))))).(((((.---..))))).((((((((((((...))))))).))))).....)))))........... ( -35.00)
>consensus
ACCAGCAGCAAUCUUGGGAUUGUAUUUAGA___UGCUGCAGUCUGCCGGGGAUGCAGUCUCCGCGCAGAGACAAGCUGGGGCAAGAAACU
.(((((.((((((....))))))..................((((((((((((...))))))).))))).....)))))........... (-31.52 = -31.40 +  -0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 724,599 – 724,689
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 94.56
Mean single sequence MFE -26.06
Consensus MFE -22.26
Energy contribution -22.30
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.48
Structure conservation index 0.85
SVM decision value 0.66
SVM RNA-class probability 0.814422
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 724599 90 - 22407834
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAGACUGCAUCCCCGGCAGACUGCAGCAUCAUCUAAAUACAAUCCCAAGAUUGCUGCUGGU
((((...((((...((..((((((....)))))).))......))))))))((((((..((((.............)))))))))).... ( -25.32)
>DroSec_CAF1 103229 87 - 1
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAGACUGCAUCCCCGGCAGACCGCAGCA---UCUAAAUACAAUCCCAAGAUUGCUGCUGGU
......(((((...((..((((((....)))))).))......)))))(((((((((---(((.............))).)))))).))) ( -27.52)
>DroSim_CAF1 108400 87 - 1
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAGACUGCAUCCCCGGCAGACUGCAGCA---UCUAAAUACAAUCCCAAGAUUGCUGCUGGU
((((...((((...((..((((((....)))))).))......))))))))((((((---(((.............))).)))))).... ( -25.32)
>DroEre_CAF1 114077 87 - 1
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAAACUGCAUCCCCGGCGGACUCCACCA---UCUAAAUACAAUCCCGAGAUUGCUGCUGGU
...........(((((..(((((((((.(....))))).....((.((...)).)).---...............)))))....))))). ( -23.20)
>DroYak_CAF1 109506 87 - 1
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAGACUGCAUCUCCGGCAGACUCCAGCA---UCUGAAUACAAUCCCGAGAUUGCUGCUGGU
...........(((((.....(((((.((((((.....)))))))))))....((((---(((.............))).))))))))). ( -28.92)
>consensus
AGUUUCUUGCCCCAGCUUGUCUCUGCGCGGAGACUGCAUCCCCGGCAGACUGCAGCA___UCUAAAUACAAUCCCAAGAUUGCUGCUGGU
...........(((((.....(((((.(((.((.....)).))))))))...................(((((....)))))..))))). (-22.26 = -22.30 +   0.04) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:10 2006