Locus 7372

Sequence ID 2L_DroMel_CAF1
Location 20,530,594 – 20,530,701
Length 107
Max. P 0.953724
window11843 window11844

overview

Window 3

Location 20,530,594 – 20,530,701
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 98.13
Mean single sequence MFE -30.16
Consensus MFE -28.66
Energy contribution -29.10
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.58
Structure conservation index 0.95
SVM decision value 1.44
SVM RNA-class probability 0.953724
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20530594 107 + 22407834
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGCGCUGGCCAAGAGAAAAAUGGCUCGCCAGA
.......(((((.(((....((((..((((((.((.((((.........)))).)).)).))))..))))..((((((....)))))).........))).))))). ( -31.40)
>DroSec_CAF1 51828 107 + 1
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGCACUGGCCAAGAGAAAAAUGGCCCGCCAGA
.......(((((.(((....((((..((((((.((.((((.........)))).)).)).))))..))))..((((((....)))))).........))).))))). ( -33.10)
>DroSim_CAF1 53160 107 + 1
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGCACUGGCCAAGAGAAAAAUGGCUCGCCAGA
.......(((((.(((....((((..((((((.((.((((.........)))).)).)).))))..))))..((((((....)))))).........))).))))). ( -31.20)
>DroEre_CAF1 44957 107 + 1
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGAGCUGGCCCAGAGAAAAAUGGCUCGCCAGA
.....(((.(((..((..(((((..(((((((.((.((((.........)))).)).)).))))).....)))))...))..)))..(((........))))))... ( -27.20)
>DroYak_CAF1 47098 107 + 1
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGAACUGGCCAAGAGAAAAAUGGCUCGCCAGA
.......(((((.(((....((((..((((((.((.((((.........)))).)).)).))))..))))..(((((......))))).........))).))))). ( -27.90)
>consensus
AACUCGGCUGGCUGGCAAAAGUUAAUCAACAUUUCAUUAAUUAAUUUCUUUAAAGAUGUCGUUGGGUGGCGACUUGGCACUGGCCAAGAGAAAAAUGGCUCGCCAGA
.......(((((.(((....((((..((((((.((.((((.........)))).)).)).))))..))))..((((((....)))))).........))).))))). (-28.66 = -29.10 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,530,594 – 20,530,701
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 98.13
Mean single sequence MFE -26.42
Consensus MFE -24.16
Energy contribution -24.20
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.67
Structure conservation index 0.91
SVM decision value 1.31
SVM RNA-class probability 0.940054
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20530594 107 - 22407834
UCUGGCGAGCCAUUUUUCUCUUGGCCAGCGCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.(((((..((....(((((.(((((....)))))((((........))))........)))))(((((((((.....))))))))).....))..)))))....... ( -26.70)
>DroSec_CAF1 51828 107 - 1
UCUGGCGGGCCAUUUUUCUCUUGGCCAGUGCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.(((((.(((....(((((.(((((....)))))((((........))))........)))))(((((((((.....))))))))).....))).)))))....... ( -29.70)
>DroSim_CAF1 53160 107 - 1
UCUGGCGAGCCAUUUUUCUCUUGGCCAGUGCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.(((((..((....(((((.(((((....)))))((((........))))........)))))(((((((((.....))))))))).....))..)))))....... ( -26.60)
>DroEre_CAF1 44957 107 - 1
UCUGGCGAGCCAUUUUUCUCUGGGCCAGCUCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.((((((((........)))..(((.........((((........))))........((((.(((((((((.....))))))))).))))))).)))))....... ( -24.10)
>DroYak_CAF1 47098 107 - 1
UCUGGCGAGCCAUUUUUCUCUUGGCCAGUUCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.((((((((........))).((((.........((((........))))........((((.(((((((((.....))))))))).)))))))))))))....... ( -25.00)
>consensus
UCUGGCGAGCCAUUUUUCUCUUGGCCAGUGCCAAGUCGCCACCCAACGACAUCUUUAAAGAAAUUAAUUAAUGAAAUGUUGAUUAACUUUUGCCAGCCAGCCGAGUU
.((((((((........))).((((.........((((........))))........((((.(((((((((.....))))))))).)))))))))))))....... (-24.16 = -24.20 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:08 2006