Locus 219

Sequence ID 3L_DroMel_CAF1
Location 613,169 – 613,266
Length 97
Max. P 0.972626
window323 window324

overview

Window 3

Location 613,169 – 613,266
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 97.07
Mean single sequence MFE -22.35
Consensus MFE -20.81
Energy contribution -21.06
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -3.39
Structure conservation index 0.93
SVM decision value 1.67
SVM RNA-class probability 0.970966
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 613169 97 + 23771897
GCUGAAUUUCAGUGCGUGUGCUCAGCAUUUAACUAAACUGGCACACACGCACACCAACACCAGCGAACGGAAAACGAAAAAAAAAAUUAAAACACAC
((((.......(((((((((.((((............))))..)))))))))........))))...((.....))..................... ( -22.46)
>DroSec_CAF1 24427 95 + 1
GCUGAAUUUCAGUGCGUGUGCUCAGCAUUUAACUAAACUGGCACACACGCACACCAACACCAGCGAACGGAAAACGAAAA--AAAAUUAAAACACAC
((((.......(((((((((.((((............))))..)))))))))........))))...((.....))....--............... ( -22.46)
>DroSim_CAF1 22821 95 + 1
GCUGAAUUUCAGUGCGUGUGCUCAGCAUUUAACUAAACUGGCACACACGCACACCAACACCAGAGAACGGAAAACGAAAA--AAAAUUAAAACACAC
......((((.(((((((((.((((............))))..))))))))).......((.......)).....)))).--............... ( -20.40)
>DroEre_CAF1 26178 96 + 1
GCUGAGUUUCAGUGCGUGUGCUCAGCAUUUAACUAAACUGGCACACACGCACACCAACACCAGCGAACGGAAAACGAAAAAA-AAAUUAAAACACAC
((((.(((...(((((((((.((((............))))..)))))))))...)))..))))...((.....))......-.............. ( -24.10)
>consensus
GCUGAAUUUCAGUGCGUGUGCUCAGCAUUUAACUAAACUGGCACACACGCACACCAACACCAGCGAACGGAAAACGAAAA__AAAAUUAAAACACAC
((((.......(((((((((.((((............))))..)))))))))........))))...((.....))..................... (-20.81 = -21.06 +   0.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 613,169 – 613,266
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 97.07
Mean single sequence MFE -28.18
Consensus MFE -27.79
Energy contribution -27.85
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.44
Structure conservation index 0.99
SVM decision value 1.70
SVM RNA-class probability 0.972626
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 613169 97 - 23771897
GUGUGUUUUAAUUUUUUUUUUCGUUUUCCGUUCGCUGGUGUUGGUGUGCGUGUGUGCCAGUUUAGUUAAAUGCUGAGCACACGCACUGAAAUUCAGC
.................................(((((.(((...((((((((((..((((..........)))).))))))))))...)))))))) ( -28.30)
>DroSec_CAF1 24427 95 - 1
GUGUGUUUUAAUUUU--UUUUCGUUUUCCGUUCGCUGGUGUUGGUGUGCGUGUGUGCCAGUUUAGUUAAAUGCUGAGCACACGCACUGAAAUUCAGC
...............--................(((((.(((...((((((((((..((((..........)))).))))))))))...)))))))) ( -28.30)
>DroSim_CAF1 22821 95 - 1
GUGUGUUUUAAUUUU--UUUUCGUUUUCCGUUCUCUGGUGUUGGUGUGCGUGUGUGCCAGUUUAGUUAAAUGCUGAGCACACGCACUGAAAUUCAGC
.((.((((((.....--...(((....(((.....)))...))).((((((((((..((((..........)))).)))))))))))))))).)).. ( -25.40)
>DroEre_CAF1 26178 96 - 1
GUGUGUUUUAAUUU-UUUUUUCGUUUUCCGUUCGCUGGUGUUGGUGUGCGUGUGUGCCAGUUUAGUUAAAUGCUGAGCACACGCACUGAAACUCAGC
..............-..................(((((.(((...((((((((((..((((..........)))).))))))))))...)))))))) ( -30.70)
>consensus
GUGUGUUUUAAUUUU__UUUUCGUUUUCCGUUCGCUGGUGUUGGUGUGCGUGUGUGCCAGUUUAGUUAAAUGCUGAGCACACGCACUGAAAUUCAGC
.................................(((((.(((...((((((((((..((((..........)))).))))))))))...)))))))) (-27.79 = -27.85 +   0.06) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:38 2006