Locus 8527

Sequence ID X_DroMel_CAF1
Location 21,094,823 – 21,094,963
Length 140
Max. P 0.806443
window14034 window14035

overview

Window 4

Location 21,094,823 – 21,094,923
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -21.50
Consensus MFE -20.84
Energy contribution -21.40
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -1.36
Structure conservation index 0.97
SVM decision value 0.02
SVM RNA-class probability 0.543753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21094823 100 - 22224390
AAAAUGUUCUAUUUACUAGGACAUAUCCAGUUUGCGGAUUUCUCUGAACUCGUUUAAUUUUUAGUUGCGCCCUUAGCGCUUUUGGACUCGUUUCCAUUUC
...((((((((.....)))))))).(((((...(((..(((....)))..))).............((((.....))))..))))).............. ( -19.20)
>DroSec_CAF1 25497 100 - 1
GAAAUGUUCUAGUUACUAGAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAUUUGCGCCCUUAGCGCUUUUGGACUUGUUUCCAUUUC
((((((((((((...)))))))...(((((...((((((((....)))))))).............((((.....))))..)))))...)))))...... ( -26.50)
>DroSim_CAF1 38478 100 - 1
GAAUUGUUCUAGUUACUAAAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAGUUGCGCCCUUAGCGCUUUUGGACUCGUUUCCAUUUC
....((((.(((...))).))))..(((((...((((((((....)))))))).............((((.....))))..))))).............. ( -18.80)
>consensus
GAAAUGUUCUAGUUACUAGAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAGUUGCGCCCUUAGCGCUUUUGGACUCGUUUCCAUUUC
...((((((((.....)))))))).(((((...((((((((....)))))))).............((((.....))))..))))).............. (-20.84 = -21.40 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,094,843 – 21,094,963
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -27.63
Consensus MFE -26.32
Energy contribution -25.67
Covariance contribution -0.65
Combinations/Pair 1.18
Mean z-score -1.77
Structure conservation index 0.95
SVM decision value 0.63
SVM RNA-class probability 0.806443
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21094843 120 - 22224390
UCACACAUACGAUUCAGUUUUGUUUGGAGAACCCUUUUCCAAAAUGUUCUAUUUACUAGGACAUAUCCAGUUUGCGGAUUUCUCUGAACUCGUUUAAUUUUUAGUUGCGCCCUUAGCGCU
........(((((((((.....((((((((.....))))))))((((((((.....))))))))((((.......))))....))))).)))).............((((.....)))). ( -28.80)
>DroSec_CAF1 25517 120 - 1
UCACACAUAUGAUUCAGUGUUAUUUGGAAAACCCUUUUCCGAAAUGUUCUAGUUACUAGAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAUUUGCGCCCUUAGCGCU
..((((..........))))..((((((((.....))))))))(((((((((...)))))))))...(((...((((((((....)))))))).....))).....((((.....)))). ( -30.20)
>DroSim_CAF1 38498 120 - 1
UCACACAUAUGAUUCAGUGUUAUUUGGAAAACCCUUUUCCGAAUUGUUCUAGUUACUAAAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAGUUGCGCCCUUAGCGCU
...............(((((((((((((((.....)))))))).................(((...(.((((.((((((((....))))))))..)))).)....))).....))))))) ( -23.90)
>consensus
UCACACAUAUGAUUCAGUGUUAUUUGGAAAACCCUUUUCCGAAAUGUUCUAGUUACUAGAGCAUAUCCAGUUUGCGGGUUUCUCUGAACUCGUUUAAUUUGUAGUUGCGCCCUUAGCGCU
........(((((((((.....((((((((.....))))))))((((((((.....))))))))((((.......))))....))))).)))).............((((.....)))). (-26.32 = -25.67 +  -0.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:33 2006