Locus 2416

Sequence ID 3R_DroMel_CAF1
Location 6,761,061 – 6,761,162
Length 101
Max. P 0.998369
window3929 window3930

overview

Window 9

Location 6,761,061 – 6,761,162
Length 101
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 78.72
Mean single sequence MFE -30.00
Consensus MFE -17.39
Energy contribution -20.31
Covariance contribution 2.92
Combinations/Pair 0.92
Mean z-score -3.48
Structure conservation index 0.58
SVM decision value 2.60
SVM RNA-class probability 0.995674
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6761061 101 + 27905053
GCUAAUGAUGCCGAACUGGCAAACUGGCCAACUGGCCAACUGGCCAACUGGACAAACUGACCAACUGACCAACUGGCCAACUGGCCAACUGUGGCCCCA-AU
........((((.....))))....(((((..((((((..((((((..(((.((...........)).)))..))))))..))))))....)))))...-.. ( -38.50)
>DroSim_CAF1 29681 77 + 1
GCUAAUGAUGCCGAACUGGCAAACUGGCCAACUG--------GCCAACUGGACAAACUGA----------------CCAACUGGCCAACUGUGGCCCCA-AU
........((((.....))))....(((((..((--------((((..(((.(.....).----------------)))..))))))....)))))...-.. ( -27.00)
>DroEre_CAF1 9774 78 + 1
GCUAAUGAUGCCGAACUGGCAAACUGGCAAACUGG--------CCAACUCGACAAACUGG----------------CCAACUGGCCAACUGUGGCCCCAAAA
((((....((((.....))))...))))....(((--------(((...........)))----------------)))...(((((....)))))...... ( -24.50)
>consensus
GCUAAUGAUGCCGAACUGGCAAACUGGCCAACUGG_______GCCAACUGGACAAACUGA________________CCAACUGGCCAACUGUGGCCCCA_AU
((((....((((.....))))...((((((..(((((((((((.........................)))))))))))..))))))....))))....... (-17.39 = -20.31 +   2.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,761,061 – 6,761,162
Length 101
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 78.72
Mean single sequence MFE -35.83
Consensus MFE -23.85
Energy contribution -24.77
Covariance contribution 0.92
Combinations/Pair 1.07
Mean z-score -3.08
Structure conservation index 0.67
SVM decision value 3.08
SVM RNA-class probability 0.998369
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6761061 101 - 27905053
AU-UGGGGCCACAGUUGGCCAGUUGGCCAGUUGGUCAGUUGGUCAGUUUGUCCAGUUGGCCAGUUGGCCAGUUGGCCAGUUUGCCAGUUCGGCAUCAUUAGC
((-((......))))((((((..((((((..((((((..(((.(.....).)))..))))))..))))))..))))))...((((.....))))........ ( -48.70)
>DroSim_CAF1 29681 77 - 1
AU-UGGGGCCACAGUUGGCCAGUUGG----------------UCAGUUUGUCCAGUUGGC--------CAGUUGGCCAGUUUGCCAGUUCGGCAUCAUUAGC
..-...(((((...(((((((..(((----------------.(.....).)))..))))--------))).)))))....((((.....))))........ ( -31.90)
>DroEre_CAF1 9774 78 - 1
UUUUGGGGCCACAGUUGGCCAGUUGG----------------CCAGUUUGUCGAGUUGG--------CCAGUUUGCCAGUUUGCCAGUUCGGCAUCAUUAGC
..(((((((((....)))))..((((----------------(((..((...))..)))--------))))....))))..((((.....))))........ ( -26.90)
>consensus
AU_UGGGGCCACAGUUGGCCAGUUGG________________UCAGUUUGUCCAGUUGGC_______CCAGUUGGCCAGUUUGCCAGUUCGGCAUCAUUAGC
...((((((((....)))))..((((((((........)))))))).....(((..(((((....)))))..))))))...((((.....))))........ (-23.85 = -24.77 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:17 2006