Locus 75

Sequence ID sy_sa.0
Location 2,080,951 – 2,080,998
Length 47
Max. P 1.000000
window373 window374

overview

Window 3

Location 2,080,951 – 2,080,998
Length 47
Sequences 3
Columns 50
Reading direction forward
Mean pairwise identity 62.16
Mean single sequence MFE -13.97
Consensus MFE -10.42
Energy contribution -11.87
Covariance contribution 1.45
Combinations/Pair 1.09
Mean z-score -3.90
Structure conservation index 0.75
SVM decision value 7.66
SVM RNA-class probability 1.000000
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 2080951 47 + 2516575
CUAAACGA---AAAAGAGUCUGGGACAACUAUUUAUGUCCCAGACUCAUC
........---....((((((((((((........))))))))))))... ( -23.20)
>sy_ha.0 482656 48 + 2685015
CAAAAUGAU--AAAAUAGGCUGAGACAUUUUAUUUUGUCCCAGCCUCUUU
.........--.(((.((((((.((((........)))).)))))).))) ( -14.80)
>sy_au.0 2803396 50 + 2809422
CAAUAUAACUUCGUAGAGCAUAGAACAUUGAUUUAUGUACCAGCCUGAUC
.............(((.((...(.((((......)))).)..)))))... (  -3.90)
>consensus
CAAAAUGA___AAAAGAGCCUGGGACAUUUAUUUAUGUCCCAGCCUCAUC
................(((((((((((........))))))))))).... (-10.42 = -11.87 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,080,951 – 2,080,998
Length 47
Sequences 3
Columns 50
Reading direction reverse
Mean pairwise identity 62.16
Mean single sequence MFE -16.17
Consensus MFE -13.79
Energy contribution -14.13
Covariance contribution 0.34
Combinations/Pair 1.27
Mean z-score -4.10
Structure conservation index 0.85
SVM decision value 6.63
SVM RNA-class probability 0.999999
Prediction RNA

Download alignment: ClustalW | MAF

>sy_sa.0 2080951 47 + 2516575
GAUGAGUCUGGGACAUAAAUAGUUGUCCCAGACUCUUUU---UCGUUUAG
((.((((((((((((........))))))))))))....---))...... ( -23.60)
>sy_ha.0 482656 48 + 2685015
AAAGAGGCUGGGACAAAAUAAAAUGUCUCAGCCUAUUUU--AUCAUUUUG
....(((((((((((........))))))))))).....--......... ( -18.60)
>sy_au.0 2803396 50 + 2809422
GAUCAGGCUGGUACAUAAAUCAAUGUUCUAUGCUCUACGAAGUUAUAUUG
....(((((((.((((......)))).))).)).)).............. (  -6.30)
>consensus
GAUGAGGCUGGGACAUAAAUAAAUGUCCCAGACUCUUUU___UCAUUUUG
....(((((((((((........)))))))))))................ (-13.79 = -14.13 +   0.34) 
# Strand winner: reverse (0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:55:46 2006