Locus 8108

Sequence ID X_DroMel_CAF1
Location 20,169,427 – 20,169,547
Length 120
Max. P 0.977322
window13304 window13305

overview

Window 4

Location 20,169,427 – 20,169,547
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -35.83
Consensus MFE -33.42
Energy contribution -33.87
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.58
Structure conservation index 0.93
SVM decision value 1.34
SVM RNA-class probability 0.943665
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20169427 120 + 22224390
CUGUGCGAUUGCGCUUGAUUUCGUUUCAUUUAGUUUGGCCAGCGAGAAUCCCUCGUACUCCGAUUGGUAAUCCCCAAUAAUUAGCUGCAGAUUUAAACGAUAAUUGGACAAUCGCACAUG
.((((((((((...(..(((((((((.....((((((..(((((((.....)))........(((((......))))).....)))))))))).)))))).)))..).)))))))))).. ( -35.70)
>DroSec_CAF1 880 120 + 1
CUGUGCGAUUGCGCUUGAUUUCGUUUCAUUUAGUUUGGCCAGCGAGAAUCCCUCGCACUCCGAUUGCUAAUCCCUAACAAUGAGCUGCAGAUUUAAACGAUAAUUGGACAAUCGCACAUG
.((((((((((...(..(((((((((........((((...(((((.....)))))...))))((((...((.........))...))))....)))))).)))..).)))))))))).. ( -34.60)
>DroSim_CAF1 427 120 + 1
CUGUGCGAUUGCGCUUGAUUUCGUUUCAUUUAGUUUGGCCAGCGAGAAUCCCUCGCACUCCGAUUGCUAAUCCCCAACAAUUAGCUGCAGAUUUAAACGAUAAUUGGACAAUCGCACAUG
.((((((((((...(..(((((((((.....((((((....(((((.....))))).........((((((........))))))..)))))).)))))).)))..).)))))))))).. ( -37.20)
>consensus
CUGUGCGAUUGCGCUUGAUUUCGUUUCAUUUAGUUUGGCCAGCGAGAAUCCCUCGCACUCCGAUUGCUAAUCCCCAACAAUUAGCUGCAGAUUUAAACGAUAAUUGGACAAUCGCACAUG
.((((((((((...(..(((((((((.....((((((....(((((.....))))).........((((((........))))))..)))))).)))))).)))..).)))))))))).. (-33.42 = -33.87 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,169,427 – 20,169,547
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -37.59
Consensus MFE -36.83
Energy contribution -37.83
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.59
Structure conservation index 0.98
SVM decision value 1.79
SVM RNA-class probability 0.977322
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20169427 120 - 22224390
CAUGUGCGAUUGUCCAAUUAUCGUUUAAAUCUGCAGCUAAUUAUUGGGGAUUACCAAUCGGAGUACGAGGGAUUCUCGCUGGCCAAACUAAAUGAAACGAAAUCAAGCGCAAUCGCACAG
..(((((((((((.......((((((.(((((.(((.......))).))))).......((....((((.....))))....))..........))))))........))))))))))). ( -33.26)
>DroSec_CAF1 880 120 - 1
CAUGUGCGAUUGUCCAAUUAUCGUUUAAAUCUGCAGCUCAUUGUUAGGGAUUAGCAAUCGGAGUGCGAGGGAUUCUCGCUGGCCAAACUAAAUGAAACGAAAUCAAGCGCAAUCGCACAG
..(((((((((((.......((((((.(((((..(((.....)))..))))).......((...(((((.....)))))...))..........))))))........))))))))))). ( -37.16)
>DroSim_CAF1 427 120 - 1
CAUGUGCGAUUGUCCAAUUAUCGUUUAAAUCUGCAGCUAAUUGUUGGGGAUUAGCAAUCGGAGUGCGAGGGAUUCUCGCUGGCCAAACUAAAUGAAACGAAAUCAAGCGCAAUCGCACAG
..(((((((((((.......((((((.(((((.((((.....)))).))))).......((...(((((.....)))))...))..........))))))........))))))))))). ( -42.36)
>consensus
CAUGUGCGAUUGUCCAAUUAUCGUUUAAAUCUGCAGCUAAUUGUUGGGGAUUAGCAAUCGGAGUGCGAGGGAUUCUCGCUGGCCAAACUAAAUGAAACGAAAUCAAGCGCAAUCGCACAG
..(((((((((((.......((((((.(((((.((((.....)))).))))).......((...(((((.....)))))...))..........))))))........))))))))))). (-36.83 = -37.83 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:35 2006