Locus 3207

Sequence ID X_DroMel_CAF1
Location 8,487,710 – 8,487,870
Length 160
Max. P 0.909405
window5260 window5261

overview

Window 0

Location 8,487,710 – 8,487,830
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.44
Mean single sequence MFE -55.73
Consensus MFE -50.17
Energy contribution -48.98
Covariance contribution -1.19
Combinations/Pair 1.31
Mean z-score -1.79
Structure conservation index 0.90
SVM decision value 1.06
SVM RNA-class probability 0.909405
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8487710 120 - 22224390
ACGGGGGUCCGCAUCCGCAUCAUUCGGUGCCGCACGGACCCCUGCCGCCCGGCAUGCCCAUGCCAUCGCUGGGGCCCUUCGGCCUCCCACACGGACUGGAGGCCGUCGGGUUCUCCCAAG
.((((((((((...(.(((((....))))).)..))))))))))..((..(((((....)))))...))((((((((..((((((((..........))))))))..))))...)))).. ( -62.90)
>DroVir_CAF1 11227 120 - 1
AUGGCGGGCCACAUCCGCACCAUUCGGUGACGCAUGGACCGCUGCCGCCGGGCAUGCCAAUGCCAUCUUUGGGUCCCUUCGGCCUGCCACACGGACUGGAGGCUGUUGGGUUCUCCCAAG
.((((((((..(((.((((((....)))).)).)))....))..))))))(((((....)))))....(((((.(((..((((((.(((.......)))))))))..)))....))))). ( -52.90)
>DroPse_CAF1 35929 120 - 1
AUGGCGGCCCGCAUCCCCAUCACUCGGUGCCGCACGGGCCCCUGCCGCCGGGCAUGCCGAUGCCGUCUUUGGGUCCCUUCGGCCUCCCACAUGGUCUCGAGGCCGUUGGGUUCUCCCAAG
..((((((..((((.(((.......((.(((.....))).)).......))).))))....)))))).(((((.(((..(((((((((....))....)))))))..)))....))))). ( -53.04)
>DroGri_CAF1 11232 120 - 1
AUGGCGGCCCACAUCCGCACCACUCGGUGCCGCAUGGGCCGCUGCCGCCGGGCAUGCCGAUGCCAUCGUUGGGUCCCUUCGGCCUGCCACACGGACUGGAGGCCGUUGGGUUCUCCCAAG
(((((((((((...(.(((((....))))).)..))))))((((((....)))).))....)))))..(((((.(((..((((((.(((.......)))))))))..)))....))))). ( -62.10)
>DroWil_CAF1 9875 120 - 1
AUGGUGGGCCACAUCCGCACCAUUCGGUGCCUCAUGGCCCAUUGCCGCCGGGUAUGCCGAUGCCGUCAUUGGGUCCCUUCGGUCUGCCACAUGGUCUGGAGGCUGUUGGGUUCUCCCAAG
..(((((((((.....(((((....)))))....)))))))))(((.((((....(((((.(((.......)))....)))))..(((....))))))).)))..(((((....))))). ( -50.40)
>DroPer_CAF1 38535 120 - 1
AUGGCGGCCCGCAUCCCCAUCACUCGGUGCCGCACGGGCCCCUGCCGCCGGGCAUGCCGAUGCCGUCUUUGGGUCCCUUCGGCCUCCCACAUGGUCUCGAGGCCGUUGGGUUCUCCCAAG
..((((((..((((.(((.......((.(((.....))).)).......))).))))....)))))).(((((.(((..(((((((((....))....)))))))..)))....))))). ( -53.04)
>consensus
AUGGCGGCCCACAUCCGCACCACUCGGUGCCGCACGGGCCCCUGCCGCCGGGCAUGCCGAUGCCAUCUUUGGGUCCCUUCGGCCUCCCACACGGACUGGAGGCCGUUGGGUUCUCCCAAG
.((((((((((......((((....)))).....))))))))))......(((((....)))))....(((((.(((..((((((.(((.......)))))))))..)))....))))). (-50.17 = -48.98 +  -1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,487,750 – 8,487,870
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.33
Mean single sequence MFE -48.33
Consensus MFE -39.78
Energy contribution -38.65
Covariance contribution -1.13
Combinations/Pair 1.31
Mean z-score -1.85
Structure conservation index 0.82
SVM decision value 0.17
SVM RNA-class probability 0.616147
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8487750 120 - 22224390
UUCCUCAAAUCGGGCGAUUUGGGCCCCCAUCCGCACAGUUACGGGGGUCCGCAUCCGCAUCAUUCGGUGCCGCACGGACCCCUGCCGCCCGGCAUGCCCAUGCCAUCGCUGGGGCCCUUC
......(((((....)))))(((((((.....((...((..((((((((((...(.(((((....))))).)..))))))))))..))..(((((....)))))...)).)))))))... ( -54.50)
>DroVir_CAF1 11267 120 - 1
UUUCUCAAAUCGGGUGAUUUGGGCCCACAUCCGCACAGCUAUGGCGGGCCACAUCCGCACCAUUCGGUGACGCAUGGACCGCUGCCGCCGGGCAUGCCAAUGCCAUCUUUGGGUCCCUUC
......(((((....)))))(((((((.....((.((((....(((((.....))))).((((.((....)).))))...))))..))..(((((....))))).....))))))).... ( -44.40)
>DroPse_CAF1 35969 120 - 1
UUUCUCAAAUCUGGCGAUUUGGGCCCCCAUCCGCACAGCUAUGGCGGCCCGCAUCCCCAUCACUCGGUGCCGCACGGGCCCCUGCCGCCGGGCAUGCCGAUGCCGUCUUUGGGUCCCUUC
...((((((..(((((.(..((((((.(((..((...)).)))((((((((.............))).)))))..))))))..).)))))(((((....)))))...))))))....... ( -44.82)
>DroGri_CAF1 11272 120 - 1
UUUCUCAAAUCAGGUGAUUUGGGCCCACAUCCGCACAGCUAUGGCGGCCCACAUCCGCACCACUCGGUGCCGCAUGGGCCGCUGCCGCCGGGCAUGCCGAUGCCAUCGUUGGGUCCCUUC
......(((((....)))))(((((((((((.(((.......(((((((((...(.(((((....))))).)..)))))))))(((....))).))).)))).......))))))).... ( -51.71)
>DroWil_CAF1 9915 120 - 1
UUUCUCAAAUCGGGUGAUUUGGGGCCACAUCCGCAUAGCUAUGGUGGGCCACAUCCGCACCAUUCGGUGCCUCAUGGCCCAUUGCCGCCGGGUAUGCCGAUGCCGUCAUUGGGUCCCUUC
...........(((.((((..((((..((((.(((((.((.((((((((((.....(((((....)))))....))))))...))))..)).))))).))))..))).)..))))))).. ( -48.20)
>DroAna_CAF1 50460 120 - 1
UUCCUCAAAUCGGGCGAUUUGGGCCCCCAUCCGCACAGUUACGGGGGCCCGCACCCCCACCACUCGGUGCCGCACGGUCCCCUGCCGCCCGGAAUGCCGAUGCCAUCGCUGGGUCCCUUC
........(((.((((((..((((((((..............))))))))(((..........(((((.(((..((((.....))))..)))...)))))))).)))))).)))...... ( -46.34)
>consensus
UUUCUCAAAUCGGGCGAUUUGGGCCCACAUCCGCACAGCUAUGGCGGCCCACAUCCGCACCACUCGGUGCCGCACGGACCCCUGCCGCCGGGCAUGCCGAUGCCAUCGUUGGGUCCCUUC
......(((((....)))))((((((...........((..((((((((((......((((....)))).....))))))))))..))..(((((....)))))......)))))).... (-39.78 = -38.65 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:47 2006