Locus 5531

Sequence ID X_DroMel_CAF1
Location 14,314,099 – 14,314,212
Length 113
Max. P 0.897027
window8981 window8982

overview

Window 1

Location 14,314,099 – 14,314,212
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 89.73
Mean single sequence MFE -26.93
Consensus MFE -20.19
Energy contribution -20.19
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.60
Structure conservation index 0.75
SVM decision value 0.41
SVM RNA-class probability 0.724147
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14314099 113 + 22224390
AGAAACCGAAACCGAAACCGAAACCGAUUCCCAUUCCGAGUCCGAAUCCAAAUCCGAAUCGGAAUCGGAAUAUCCGAGUCCCCCAGUUCGAAUCGAAACCGAAAGUGAAGAAA
............(((...((((...(((((..(((((((.(((((.((.......)).))))).)))))))....)))))......))))..)))...((....).)...... ( -26.20)
>DroSec_CAF1 26790 105 + 1
AGAAACCGAAACCGAAACCGAAACCGAUUCCCAUUCCGAAUCCGAAUCCGAAU------CGGAAUCGGAA--UCCGAGUCCCCCAGUUCGAAUCGAAACCGAAAGUGAAGAAA
............(((...((((...(((((..(((((((.(((((.......)------)))).))))))--)..)))))......))))..)))...((....).)...... ( -26.40)
>DroSim_CAF1 24033 99 + 1
AGAAACCGAAA------CCGAAACCGAUUCCCAUUCCGAAUCCGAAUCGGAAU------CGGAAUCGGAA--UCCGAGUCCCCCAGUUCGAAUCGAAACCGAAAGUGAAGAAA
......((((.------..((..(.((((((.(((((((.((((...)))).)------)))))).))))--)).)..))......))))..(((....)))........... ( -28.20)
>consensus
AGAAACCGAAACCGAAACCGAAACCGAUUCCCAUUCCGAAUCCGAAUCCGAAU______CGGAAUCGGAA__UCCGAGUCCCCCAGUUCGAAUCGAAACCGAAAGUGAAGAAA
..................((((...(((((...((((((.((((...............)))).)))))).....)))))......))))..(((....)))........... (-20.19 = -20.19 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,314,099 – 14,314,212
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 89.73
Mean single sequence MFE -39.50
Consensus MFE -29.55
Energy contribution -30.67
Covariance contribution 1.11
Combinations/Pair 1.03
Mean z-score -3.62
Structure conservation index 0.75
SVM decision value 1.00
SVM RNA-class probability 0.897027
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14314099 113 - 22224390
UUUCUUCACUUUCGGUUUCGAUUCGAACUGGGGGACUCGGAUAUUCCGAUUCCGAUUCGGAUUUGGAUUCGGACUCGGAAUGGGAAUCGGUUUCGGUUUCGGUUUCGGUUUCU
........((..((((((......))))))..)).......((((((((.(((((.((.......)).))))).))))))))((((((((..(((....)))..)))))))). ( -40.20)
>DroSec_CAF1 26790 105 - 1
UUUCUUCACUUUCGGUUUCGAUUCGAACUGGGGGACUCGGA--UUCCGAUUCCG------AUUCGGAUUCGGAUUCGGAAUGGGAAUCGGUUUCGGUUUCGGUUUCGGUUUCU
........((..((((((......))))))..))......(--((((((.((((------(.......))))).)))))))(((((((((..(((....)))..))))))))) ( -38.60)
>DroSim_CAF1 24033 99 - 1
UUUCUUCACUUUCGGUUUCGAUUCGAACUGGGGGACUCGGA--UUCCGAUUCCG------AUUCCGAUUCGGAUUCGGAAUGGGAAUCGGUUUCGG------UUUCGGUUUCU
........((..((((((......))))))..))..(((((--..((((..(((------(((((.((((.......)))).))))))))..))))------.)))))..... ( -39.70)
>consensus
UUUCUUCACUUUCGGUUUCGAUUCGAACUGGGGGACUCGGA__UUCCGAUUCCG______AUUCGGAUUCGGAUUCGGAAUGGGAAUCGGUUUCGGUUUCGGUUUCGGUUUCU
........((..((((((......))))))..))..((.((...(((((.((((.........)))).))))).)).))..(((((((((..(((....)))..))))))))) (-29.55 = -30.67 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:18 2006