Locus 4790

Sequence ID X_DroMel_CAF1
Location 12,448,484 – 12,448,595
Length 111
Max. P 0.745954
window7838 window7839

overview

Window 8

Location 12,448,484 – 12,448,595
Length 111
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 69.85
Mean single sequence MFE -33.23
Consensus MFE -12.05
Energy contribution -12.38
Covariance contribution 0.34
Combinations/Pair 1.53
Mean z-score -1.94
Structure conservation index 0.36
SVM decision value 0.46
SVM RNA-class probability 0.745954
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12448484 111 + 22224390
GGAUUACUUUCGAUCGAAGGCAUAUGCUCCGAUUUGGCAGACCUUCAGUAACUUAAUUCGCCUAAAUGGCUCAUUGGCCAUUCAAUUGGCCCAAGAUUGGUUGUCGCAGUC
.((((((..(((((((((((....((((.......))))..))))).............(((.....))).....(((((......)))))...))))))..))...)))) ( -29.90)
>DroPse_CAF1 1745 111 + 1
GCACUACUUUCAGUCGAAUCAGUAUGCCCAGCAUUGGGACAACUUGAACCAAGUCGUUAAACUCAACGGAUCUCUGGCCAUUCAUUUGGCCACCGACUGGCUGUCCCAGAC
(((.(((((((....)))..)))))))......(((((((((((((...)))))............(((.((..((((((......))))))..)))))..)))))))).. ( -32.70)
>DroGri_CAF1 1494 111 + 1
AGCCUAUUUCAAAUAUAAUCACUACUCUGACUUUUUGGACAGUUGCAAUGAUUACAUUCGUCUGAAUGGCGCCUUAGCCAUUCAGUUGGCAUACGAUUGGCUGCGCCAGAC
.(((...........((((((.....(((.((....)).)))......)))))).......(((((((((......)))))))))..)))......(((((...))))).. ( -30.10)
>DroEre_CAF1 1823 111 + 1
GGAUUACUUCCGAUCGGACGCAUAUGCUCCGAUUUGGCAGACCCUUAGUCAAUUGAUUCGCCUGAACGGAUCAUUGGCUAUUCAAUUGGCUUGUGACUGGUUGUCGCAGUC
(((.....)))(((((((.((....))))))))).(.(((.....((((((((.((((((......)))))))))))))).....))).)(((((((.....))))))).. ( -38.40)
>DroYak_CAF1 1524 111 + 1
GGAUUACUUUCGAUCGGACGCAUAUGCUCCGAUUUGGCAGACAUUCAGUCAUUUGAUUCGUCUAAAUGGCUCAUUGGCCAUUCAAUUGGCCAGCGACUGGUUGACGCAGUC
((((..((.(((((((((.((....))))))).)))).))..))))((((((((((....)).))))))))..(((((((......))))))).((((((....).))))) ( -35.60)
>DroPer_CAF1 1745 111 + 1
GCACUACUUUCAGUCGAAUCAGUAUGCCCAGCAUUGGGACAACUUGAACCAAGUCGUUAAACUCAACGGAUCUCUGGCCAUUCAUUUGGCCACCGACUGGCUGUCCCAGAC
(((.(((((((....)))..)))))))......(((((((((((((...)))))............(((.((..((((((......))))))..)))))..)))))))).. ( -32.70)
>consensus
GGACUACUUUCAAUCGAAUCAAUAUGCUCAGAUUUGGCACACCUUCAAUCAAUUCAUUCGACUAAACGGAUCAUUGGCCAUUCAAUUGGCCAACGACUGGCUGUCCCAGAC
......(..(((((((........((((.......))))....................................(((((......)))))..)))))))..)........ (-12.05 = -12.38 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,448,484 – 12,448,595
Length 111
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 69.85
Mean single sequence MFE -34.95
Consensus MFE -9.52
Energy contribution -8.00
Covariance contribution -1.52
Combinations/Pair 1.54
Mean z-score -2.04
Structure conservation index 0.27
SVM decision value 0.08
SVM RNA-class probability 0.571809
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12448484 111 - 22224390
GACUGCGACAACCAAUCUUGGGCCAAUUGAAUGGCCAAUGAGCCAUUUAGGCGAAUUAAGUUACUGAAGGUCUGCCAAAUCGGAGCAUAUGCCUUCGAUCGAAAGUAAUCC
((.((((((..(((....)))(((...((((((((......))))))))))).......)))..(((((((.((((......).)))...))))))).......))).)). ( -28.80)
>DroPse_CAF1 1745 111 - 1
GUCUGGGACAGCCAGUCGGUGGCCAAAUGAAUGGCCAGAGAUCCGUUGAGUUUAACGACUUGGUUCAAGUUGUCCCAAUGCUGGGCAUACUGAUUCGACUGAAAGUAGUGC
((((((((((((..(((..((((((......))))))..)))...(..((((....))))..).....)))))))))((((...))))........)))............ ( -35.20)
>DroGri_CAF1 1494 111 - 1
GUCUGGCGCAGCCAAUCGUAUGCCAACUGAAUGGCUAAGGCGCCAUUCAGACGAAUGUAAUCAUUGCAACUGUCCAAAAAGUCAGAGUAGUGAUUAUAUUUGAAAUAGGCU
(..((((...))))..)....(((..(((((((((......))))))))).((((((((((((((((..(((.(......).))).)))))))))))))))).....))). ( -44.00)
>DroEre_CAF1 1823 111 - 1
GACUGCGACAACCAGUCACAAGCCAAUUGAAUAGCCAAUGAUCCGUUCAGGCGAAUCAAUUGACUAAGGGUCUGCCAAAUCGGAGCAUAUGCGUCCGAUCGGAAGUAAUCC
(((((.(....))))))...((.(((((((...(((..(((.....))))))...))))))).))..((((((.((..((((((((....)).)))))).)).))..)))) ( -32.80)
>DroYak_CAF1 1524 111 - 1
GACUGCGUCAACCAGUCGCUGGCCAAUUGAAUGGCCAAUGAGCCAUUUAGACGAAUCAAAUGACUGAAUGUCUGCCAAAUCGGAGCAUAUGCGUCCGAUCGAAAGUAAUCC
(((((.(....))))))..((((.....(((((((......)))))))(((((..(((......))).))))))))).((((((((....)).))))))(....)...... ( -33.70)
>DroPer_CAF1 1745 111 - 1
GUCUGGGACAGCCAGUCGGUGGCCAAAUGAAUGGCCAGAGAUCCGUUGAGUUUAACGACUUGGUUCAAGUUGUCCCAAUGCUGGGCAUACUGAUUCGACUGAAAGUAGUGC
((((((((((((..(((..((((((......))))))..)))...(..((((....))))..).....)))))))))((((...))))........)))............ ( -35.20)
>consensus
GACUGCGACAACCAGUCGCUGGCCAAUUGAAUGGCCAAUGAGCCAUUCAGACGAAUGAAUUGACUGAAGGUCUCCCAAAUCGGAGCAUAUGCAUUCGAUCGAAAGUAAUCC
..((.((.............(((((......)))))........((((....))))........................)).)).......................... ( -9.52 =  -8.00 +  -1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:12 2006