Locus 3075

Sequence ID X_DroMel_CAF1
Location 8,213,138 – 8,213,230
Length 92
Max. P 0.982443
window5028 window5029

overview

Window 8

Location 8,213,138 – 8,213,230
Length 92
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 83.47
Mean single sequence MFE -34.58
Consensus MFE -27.49
Energy contribution -28.05
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.51
Structure conservation index 0.80
SVM decision value 1.91
SVM RNA-class probability 0.982443
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8213138 92 + 22224390
UGCGCCAUGUGCAGUUUGCAGUCUGAAGUCUGCAGUCGAGGGUCCUUCGUCCUU-----------------CGUCCUGCAUUGCACACGUGCAUGGCAUUAAUGCAAAU
...((((((..(.((.(((((.........(((((.((((((.(....).))))-----------------))..)))))))))).)))..))))))............ ( -35.20)
>DroSec_CAF1 114578 79 + 1
UGCGCCAUGUGCAGUUUGCAGUCUGAAGUCUGCAGUCGAGGGUCCUUCGUCCUU-----------------CGUCCUGCAUUGCACACGUGCAUGG-------------
(((((..((((((((.(((((.(....).)))))(.((((((.(....).))))-----------------)).)....)))))))).)))))...------------- ( -31.20)
>DroEre_CAF1 104628 99 + 1
UGCGCCAUGUGCAGUUUGCAGUCUGAAGUCUGCAGUCGAGGGUCCUUCGUCCUUCAUCCUU----------CGUCCUGCAUUGCACACGUGCAUGGCAUUAAUGCAAAU
(((((..(((((((..(((((..(((((..((.((.(((((...)))))..)).))..)))----------))..)))))))))))).)))))..(((....))).... ( -35.60)
>DroYak_CAF1 105177 109 + 1
UGCGCCAUGUGCAGUUUGCAGUCUGAAGUCUGCAGUCGAAGGUCCUUCGUCCUUCGUCGUUCGCCUCUCGUCGUCCUGCAUUGCACACGUGCAUGGCAUUAAUGCAAAU
(((((..(((((((..(((((..(((.....((.(.((((((.(....).)))))).)....))......)))..)))))))))))).)))))..(((....))).... ( -36.30)
>consensus
UGCGCCAUGUGCAGUUUGCAGUCUGAAGUCUGCAGUCGAGGGUCCUUCGUCCUU_________________CGUCCUGCAUUGCACACGUGCAUGGCAUUAAUGCAAAU
...(((((((((((.((((((.(....).))))))..(((((.(....).)))))....................)))))).(((....))))))))............ (-27.49 = -28.05 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,213,138 – 8,213,230
Length 92
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 83.47
Mean single sequence MFE -32.17
Consensus MFE -24.70
Energy contribution -24.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.77
SVM decision value 1.32
SVM RNA-class probability 0.941615
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8213138 92 - 22224390
AUUUGCAUUAAUGCCAUGCACGUGUGCAAUGCAGGACG-----------------AAGGACGAAGGACCCUCGACUGCAGACUUCAGACUGCAAACUGCACAUGGCGCA
....(((....)))..(((.((((((((.(((((..((-----------------(.((.(....).)).))).(((.......))).)))))...))))))))..))) ( -29.90)
>DroSec_CAF1 114578 79 - 1
-------------CCAUGCACGUGUGCAAUGCAGGACG-----------------AAGGACGAAGGACCCUCGACUGCAGACUUCAGACUGCAAACUGCACAUGGCGCA
-------------...(((.((((((((.(((((..((-----------------(.((.(....).)).))).(((.......))).)))))...))))))))..))) ( -28.90)
>DroEre_CAF1 104628 99 - 1
AUUUGCAUUAAUGCCAUGCACGUGUGCAAUGCAGGACG----------AAGGAUGAAGGACGAAGGACCCUCGACUGCAGACUUCAGACUGCAAACUGCACAUGGCGCA
....(((....)))..(((.((((((((.(((((...(----------(((..((.((..(((.(....)))).)).))..))))...)))))...))))))))..))) ( -34.10)
>DroYak_CAF1 105177 109 - 1
AUUUGCAUUAAUGCCAUGCACGUGUGCAAUGCAGGACGACGAGAGGCGAACGACGAAGGACGAAGGACCUUCGACUGCAGACUUCAGACUGCAAACUGCACAUGGCGCA
....(((....)))..(((.((((((((.(((((..((.(....).)).....((((((.(....).))))))...............)))))...))))))))..))) ( -35.80)
>consensus
AUUUGCAUUAAUGCCAUGCACGUGUGCAAUGCAGGACG_________________AAGGACGAAGGACCCUCGACUGCAGACUUCAGACUGCAAACUGCACAUGGCGCA
................(((.((((((((.(((((.......................((.(....).)).....(((.......))).)))))...))))))))..))) (-24.70 = -24.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:21 2006