Locus 3

Sequence ID nosto.0
Location 449,231 – 449,309
Length 78
Max. P 0.999265
window5 window6

overview

Window 5

Location 449,231 – 449,309
Length 78
Sequences 4
Columns 78
Reading direction forward
Mean pairwise identity 83.97
Mean single sequence MFE -31.55
Consensus MFE -33.78
Energy contribution -31.40
Covariance contribution -2.38
Combinations/Pair 1.32
Mean z-score -2.47
Structure conservation index 1.07
SVM decision value 3.21
SVM RNA-class probability 0.998748
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 449231 78 + 6413771
UUUACGGGGGUUUAGCUCAGUUGGUAGAGCGCCUGCUUUGCAAGCAGGAUGUCAGCGGUUCGAGUCCGCUAACCUCCA
.....(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))). ( -32.10)
>anava.0 3497790 78 + 6365727
UUUACGGGGGUUUAGCUCAGUUGGUAGAGCGCCUGCUUUGCAAGCAGGAUGUCAGCGGUUCGAGUCCGCUAACCUCCA
.....(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))). ( -32.10)
>synel.0 1658206 78 + 2696255
GAUGUGGGGGUUUAGCUCAGUUGGUAGAGCGCCUGCUUUGCAAGCAGGAUGUCAGCGGUUCGAGUCCGCUAACCUCCA
....((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))) ( -31.90)
>gloev.0 2998873 78 + 4659019
CUCGCGGGGAGUUAGCUCAGUUGGUAGAGCGCAGCAAUCGCACUGCUGAGGUCAGGGGUUCGAAUCCCCUACUCUCCA
.....(((((((...((((((....((.(((.(....)))).))))))))...(((((.......)))))))))))). ( -30.10)
>consensus
UUUACGGGGGUUUAGCUCAGUUGGUAGAGCGCCUGCUUUGCAAGCAGGAUGUCAGCGGUUCGAGUCCGCUAACCUCCA
.....(((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))). (-33.78 = -31.40 +  -2.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 449,231 – 449,309
Length 78
Sequences 4
Columns 78
Reading direction reverse
Mean pairwise identity 83.97
Mean single sequence MFE -29.48
Consensus MFE -30.24
Energy contribution -27.05
Covariance contribution -3.19
Combinations/Pair 1.39
Mean z-score -3.09
Structure conservation index 1.03
SVM decision value 3.47
SVM RNA-class probability 0.999265
Prediction RNA

Download alignment: ClustalW | MAF

>nosto.0 449231 78 - 6413771
UGGAGGUUAGCGGACUCGAACCGCUGACAUCCUGCUUGCAAAGCAGGCGCUCUACCAACUGAGCUAAACCCCCGUAAA
.(((.((((((((.......)))))))).))).((((((...))))))((((........)))).............. ( -30.10)
>anava.0 3497790 78 - 6365727
UGGAGGUUAGCGGACUCGAACCGCUGACAUCCUGCUUGCAAAGCAGGCGCUCUACCAACUGAGCUAAACCCCCGUAAA
.(((.((((((((.......)))))))).))).((((((...))))))((((........)))).............. ( -30.10)
>synel.0 1658206 78 - 2696255
UGGAGGUUAGCGGACUCGAACCGCUGACAUCCUGCUUGCAAAGCAGGCGCUCUACCAACUGAGCUAAACCCCCACAUC
.(((.((((((((.......)))))))).))).((((((...))))))((((........)))).............. ( -30.10)
>gloev.0 2998873 78 - 4659019
UGGAGAGUAGGGGAUUCGAACCCCUGACCUCAGCAGUGCGAUUGCUGCGCUCUACCAACUGAGCUAACUCCCCGCGAG
.((.(((((((((.......))))).......(((((......)))))((((........))))..)))).))..... ( -27.60)
>consensus
UGGAGGUUAGCGGACUCGAACCGCUGACAUCCUGCUUGCAAAGCAGGCGCUCUACCAACUGAGCUAAACCCCCGCAAA
(((.(((((((((.......))))).....(((((((...))))))).((((........))))..)))).))).... (-30.24 = -27.05 +  -3.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Wed Apr 5 20:05:34 2006