Locus 1

Sequence ID nosto.0
Location 56,433 – 56,519
Length 86
Max. P 0.999530
window1 window2

overview

Window 1

Location 56,433 – 56,519
Length 86
RNAz 1.0pre Sequences 4
Columns 86
Reading direction forward
Mean pairwise identity 81.75
Mean single sequence MFE -33.30
Consensus MFE -28.64
Energy contribution -28.95
Covariance contribution 0.31
Combinations/Pair 1.11
Mean z-score -4.16
Structure conservation index 0.86
SVM decision value 3.69
SVM RNA-class probability 0.999530
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 56433 86 + 6413771
UCGCCUACAAUAGAUAUAGCGGAGACGCAUGUUUCCGUUCACUCCUCACACCACACUCCGCCCGGACUACUGUUCGGGCGGUUCCU
............((...(((((((((....)))))))))...)).............((((((((((....))))))))))..... ( -31.00)
>anava.0 3283406 86 + 6365727
UCGCCUACAAUAGAUAUAGCGGAGACGCAUGUUUCCGUUCACUCCUCACACCACACUCCGCCCGGACUACUGUUCGGGCGGUUCCU
............((...(((((((((....)))))))))...)).............((((((((((....))))))))))..... ( -31.00)
>gloev.0 3727265 83 - 4659019
UCGCAUAGAAUGAAGGAAGCGGAGACGCAUGUUUCCGUUCACUCCUCACACCAUGUUCCGCCCGGUC---GCUCCGGGCGGUUUCU
..((((.(..(((.((((((((((((....)))))))))...))))))..).)))).((((((((..---...))))))))..... ( -35.70)
>synel.0 2417281 85 + 2696255
UCACUUAGAAUGAGGUUAGCGGAGACAAAUGUUUCCGUUCACUCCUCACACCACACUUCGCCCGGGC-AACGCUCGGGCGUUUUUU
..........(((((..(((((((((....)))))))))....)))))..........(((((((((-...)))))))))...... ( -35.50)
>consensus
UCGCCUACAAUAAAGAUAGCGGAGACGCAUGUUUCCGUUCACUCCUCACACCACACUCCGCCCGGAC_ACUGUUCGGGCGGUUCCU
.................(((((((((....)))))))))..................((((((((((....))))))))))..... (-28.64 = -28.95 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 56,433 – 56,519
Length 86
Sequences 4
Columns 86
Reading direction reverse
Mean pairwise identity 81.75
Mean single sequence MFE -32.47
Consensus MFE -25.26
Energy contribution -26.70
Covariance contribution 1.44
Combinations/Pair 1.17
Mean z-score -2.47
Structure conservation index 0.78
SVM decision value 2.01
SVM RNA-class probability 0.985446
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 56433 86 + 6413771
AGGAACCGCCCGAACAGUAGUCCGGGCGGAGUGUGGUGUGAGGAGUGAACGGAAACAUGCGUCUCCGCUAUAUCUAUUGUAGGCGA
......((((...(((((((....(((((((((((.(((.....(....)....))))))).)))))))....))))))).)))). ( -31.90)
>anava.0 3283406 86 + 6365727
AGGAACCGCCCGAACAGUAGUCCGGGCGGAGUGUGGUGUGAGGAGUGAACGGAAACAUGCGUCUCCGCUAUAUCUAUUGUAGGCGA
......((((...(((((((....(((((((((((.(((.....(....)....))))))).)))))))....))))))).)))). ( -31.90)
>gloev.0 3727265 83 - 4659019
AGAAACCGCCCGGAGC---GACCGGGCGGAACAUGGUGUGAGGAGUGAACGGAAACAUGCGUCUCCGCUUCCUUCAUUCUAUGCGA
.....((((((((...---..))))))))..(((((.((((((...(((((((.((....)).)))).))))))))).)))))... ( -36.20)
>synel.0 2417281 85 + 2696255
AAAAAACGCCCGAGCGUU-GCCCGGGCGAAGUGUGGUGUGAGGAGUGAACGGAAACAUUUGUCUCCGCUAACCUCAUUCUAAGUGA
......((((((.((...-)).)))))).((((.(((....((((((((.(....).)))).))))....))).))))........ ( -29.90)
>consensus
AGAAACCGCCCGAACAGU_GUCCGGGCGGAGUGUGGUGUGAGGAGUGAACGGAAACAUGCGUCUCCGCUAUAUCCAUUCUAGGCGA
.....(((((((.((....)).))))))).((((((((.(((..(((...(....).)))..)))))))))))............. (-25.26 = -26.70 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Wed Apr 19 19:58:17 2006