Locus 62

Sequence ID sy_ha.0
Location 1,903,274 – 1,903,361
Length 87
Max. P 0.999873
window280 window281

overview

Window 0

Location 1,903,274 – 1,903,361
Length 87
Sequences 3
Columns 89
Reading direction forward
Mean pairwise identity 76.98
Mean single sequence MFE -19.36
Consensus MFE -12.49
Energy contribution -14.83
Covariance contribution 2.34
Combinations/Pair 1.15
Mean z-score -4.03
Structure conservation index 0.65
SVM decision value 4.33
SVM RNA-class probability 0.999873
Prediction RNA
WARNING Sequence 1: Base composition out of range.
WARNING Sequence 2: Base composition out of range.
WARNING Sequence 3: Base composition out of range.

Download alignment: ClustalW | MAF

>sy_ha.0 1903274 87 + 2685015
UUAAAAAA--GCUAUACUUUGUUUAGUAAUAUUAAACAUUUUGUUUAAUGCUUAAUAAAAGUAACAAAAUAUAGCUUUAACUUCAAUAC
.....(((--((((((.((((((......((((((.((((......)))).)))))).....)))))).)))))))))........... ( -19.00)
>sy_au.0 1691892 87 - 2809422
CUAAAAAA--GCUAUAUUAAGUUUACUUUUAUCAAACAUUUUGUUUAACACUUGAUAAAGGUAUCAAAAUAUAGCUUUAUUAGCAAUAG
((((.(((--((((((((.....((((((((((((................))))))))))))....))))))))))).))))...... ( -23.79)
>sy_sa.0 1759661 89 + 2516575
UUAAAAAAUCGUUAUAUGCUGUUUAUAUUUAUCAAACAUUUUGUUUAAUGCUUAAUAAAAAUAUCAAAAUAUAACGAUGAAGACAAUAC
.......((((((((((..((..(((.(((((.((.((((......)))).)).))))).))).))..))))))))))........... ( -15.30)
>consensus
UUAAAAAA__GCUAUAUUAUGUUUACUUUUAUCAAACAUUUUGUUUAAUGCUUAAUAAAAGUAUCAAAAUAUAGCUUUAAAAACAAUAC
..........((((((((.((..((((((((((((.((((......)))).)))))))))))).)).)))))))).............. (-12.49 = -14.83 +   2.34)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,903,274 – 1,903,361
Length 87
Sequences 3
Columns 89
Reading direction reverse
Mean pairwise identity 76.98
Mean single sequence MFE -24.43
Consensus MFE -18.04
Energy contribution -18.17
Covariance contribution 0.12
Combinations/Pair 1.30
Mean z-score -5.13
Structure conservation index 0.74
SVM decision value 3.62
SVM RNA-class probability 0.999457
Prediction RNA
WARNING Sequence 1: Base composition out of range.
WARNING Sequence 2: Base composition out of range.
WARNING Sequence 3: Base composition out of range.

Download alignment: ClustalW | MAF

>sy_ha.0 1903274 87 + 2685015
GUAUUGAAGUUAAAGCUAUAUUUUGUUACUUUUAUUAAGCAUUAAACAAAAUGUUUAAUAUUACUAAACAAAGUAUAGC--UUUUUUAA
...........((((((((((((((((.....(((((((((((......)))))))))))......)))))))))))))--)))..... ( -25.90)
>sy_au.0 1691892 87 - 2809422
CUAUUGCUAAUAAAGCUAUAUUUUGAUACCUUUAUCAAGUGUUAAACAAAAUGUUUGAUAAAAGUAAACUUAAUAUAGC--UUUUUUAG
......((((.(((((((((((..(.(((.(((((((((..((......))..))))))))).)))..)..))))))))--))).)))) ( -25.30)
>sy_sa.0 1759661 89 + 2516575
GUAUUGUCUUCAUCGUUAUAUUUUGAUAUUUUUAUUAAGCAUUAAACAAAAUGUUUGAUAAAUAUAAACAGCAUAUAACGAUUUUUUAA
...........((((((((((.(((.(((.(((((((((((((......))))))))))))).)))..))).))))))))))....... ( -22.10)
>consensus
GUAUUGAAAUUAAAGCUAUAUUUUGAUACUUUUAUUAAGCAUUAAACAAAAUGUUUGAUAAAAAUAAACAAAAUAUAGC__UUUUUUAA
..............(((((((((((.(((.(((((((((((((......))))))))))))).)))..))))))))))).......... (-18.04 = -18.17 +   0.12) 
# Strand winner: reverse (1.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:54:28 2006