Locus 90

Sequence ID sy_ha.0
Location 2,552,524 – 2,552,588
Length 64
Max. P 0.841923
window472 window473

overview

Window 2

Location 2,552,524 – 2,552,588
Length 64
Sequences 3
Columns 75
Reading direction reverse
Mean pairwise identity 74.30
Mean single sequence MFE -12.53
Consensus MFE -7.60
Energy contribution -7.38
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.61
SVM decision value 0.75
SVM RNA-class probability 0.841923
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2552524 64 + 2685015
UGAAAGCCUUUACAAAACUUGUCUAGACAAGUUAUACUUGAGCUAUUAU-----------AAACAAGGGAGUGAA
.........((((..(((((((....)))))))...((((.........-----------...))))...)))). ( -10.10)
>sy_au.0 2288957 63 - 2809422
UGAAAGCCUUUACAUAACUUGUCUAGACAAGUUAUACUCGUUUUAAGAC------------AUUAAGGGAGUGAA
......((((((.(((((((((....)))))))))....(((....)))------------..))))))...... ( -14.50)
>sy_sa.0 2363406 75 + 2516575
UGAAAACCUUUACAAAACUUGUAUAGACAAGUUAUACUUCUAGUAAUAUCUAAAGUUUAAUUAUAAGGGAGUGAA
......((((((...(((((((....)))))))..((((.(((......))))))).......))))))...... ( -13.00)
>consensus
UGAAAGCCUUUACAAAACUUGUCUAGACAAGUUAUACUUGUACUAAUAU____________AAUAAGGGAGUGAA
...............(((((((....))))))).(((((.............................))))).. ( -7.60 =  -7.38 +  -0.22) 
# Strand winner: reverse (0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,552,524 – 2,552,588
Length 64
Sequences 3
Columns 75
Reading direction reverse
Mean pairwise identity 74.30
Mean single sequence MFE -12.53
Consensus MFE -7.60
Energy contribution -7.38
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.61
SVM decision value 0.75
SVM RNA-class probability 0.841923
Prediction RNA

Download alignment: ClustalW | MAF

>sy_ha.0 2552524 64 + 2685015/0-75
UGAAAGCCUUUACAAAACUUGUCUAGACAAGUUAUACUUGAGCUAUUAU-----------AAACAAGGGAGUGAA
.........((((..(((((((....)))))))...((((.........-----------...))))...)))). ( -10.10)
>sy_au.0 2288957 63 - 2809422/0-75
UGAAAGCCUUUACAUAACUUGUCUAGACAAGUUAUACUCGUUUUAAGAC------------AUUAAGGGAGUGAA
......((((((.(((((((((....)))))))))....(((....)))------------..))))))...... ( -14.50)
>sy_sa.0 2363406 75 + 2516575/0-75
UGAAAACCUUUACAAAACUUGUAUAGACAAGUUAUACUUCUAGUAAUAUCUAAAGUUUAAUUAUAAGGGAGUGAA
......((((((...(((((((....)))))))..((((.(((......))))))).......))))))...... ( -13.00)
>consensus
UGAAAGCCUUUACAAAACUUGUCUAGACAAGUUAUACUUGUACUAAUAU____________AAUAAGGGAGUGAA
...............(((((((....))))))).(((((.............................))))).. ( -7.60 =  -7.38 +  -0.22) 
# Strand winner: reverse (0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:57:07 2006