Locus 1015

Sequence ID 2R_DroMel_CAF1
Location 4,216,702 – 4,216,822
Length 120
Max. P 0.678171
window1801 window1802

overview

Window 1

Location 4,216,702 – 4,216,822
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.75
Mean single sequence MFE -30.89
Consensus MFE -20.00
Energy contribution -23.50
Covariance contribution 3.50
Combinations/Pair 1.03
Mean z-score -1.96
Structure conservation index 0.65
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4216702 120 + 20766785
AAUUAGUGCUUGCACAAUUCGCCAGUACAGUUGUAAAUGUAACUGUUUCUGCUGGACAACAUUGCGUAUACGCAACCCGUCCACUGGCUAAUUGAGUUAUAAUGCUAAGCGGCAAUUUAU
......((((.((.(((((.(((((((((((((......))))))).......((((....(((((....)))))...)))))))))).)))))(((......)))..))))))...... ( -38.10)
>DroSec_CAF1 28229 120 + 1
AAUUAGGGCUUGCACAAUUCGCCAGUACAGUUGUAAAUGUAACUGUUUCUGCCGGACAACAUUGCGUAUACGCAACCCGUCCACUGGCUAAUUGAGUUAUAAUGCUAAGCGGCAAUUUAU
.......(((.((.(((((.(((((((((((((......))))))).......((((....(((((....)))))...)))))))))).)))))(((......)))..)))))....... ( -37.50)
>DroEre_CAF1 29849 106 + 1
AAUUAGGGCUUGCACAAUUCAGCAAUACAGCUGUAAAUGUAACAG--------------CCUUGCGUAUAUGCAACCCGUCCACUGGCUAAUUGAGUUAUAAUGCUAAGCGGCAAUUUAU
.....(((.(((((.......((((....(((((.......))))--------------).)))).....))))))))(.((.(((((...............))).)).)))....... ( -24.06)
>DroYak_CAF1 30881 120 + 1
AAUUAGUGCUUGCACAAUUCAGCAAUACAGGUGUAAAUGUAACUGUUUCUGCCGGACUACCUUGCGUAUAUGCAACCCAUCCACUGGCUAAUUGAGUUAUAAUGCUAAGCGGCAAUUUAU
......((((.((.(((((.(((......(((..((((......))))..)))(((.....(((((....)))))....)))....))))))))(((......)))..))))))...... ( -23.90)
>consensus
AAUUAGGGCUUGCACAAUUCACCAAUACAGUUGUAAAUGUAACUGUUUCUGCCGGACAACAUUGCGUAUACGCAACCCGUCCACUGGCUAAUUGAGUUAUAAUGCUAAGCGGCAAUUUAU
.......(((.((.(((((.(((((((((((((......))))))).......((((....(((((....)))))...)))))))))).)))))(((......)))..)))))....... (-20.00 = -23.50 +   3.50)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,216,702 – 4,216,822
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.75
Mean single sequence MFE -33.06
Consensus MFE -21.88
Energy contribution -23.88
Covariance contribution 2.00
Combinations/Pair 1.11
Mean z-score -2.38
Structure conservation index 0.66
SVM decision value 0.30
SVM RNA-class probability 0.678171
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4216702 120 - 20766785
AUAAAUUGCCGCUUAGCAUUAUAACUCAAUUAGCCAGUGGACGGGUUGCGUAUACGCAAUGUUGUCCAGCAGAAACAGUUACAUUUACAACUGUACUGGCGAAUUGUGCAAGCACUAAUU
..........((((.(((........(((((.((((((((((((((((((....)))))).)))))).......((((((........)))))))))))).))))))))))))....... ( -39.20)
>DroSec_CAF1 28229 120 - 1
AUAAAUUGCCGCUUAGCAUUAUAACUCAAUUAGCCAGUGGACGGGUUGCGUAUACGCAAUGUUGUCCGGCAGAAACAGUUACAUUUACAACUGUACUGGCGAAUUGUGCAAGCCCUAAUU
...(((((..((((.(((........(((((.((((((((((((((((((....)))))).)))))).......((((((........)))))))))))).))))))))))))..))))) ( -39.00)
>DroEre_CAF1 29849 106 - 1
AUAAAUUGCCGCUUAGCAUUAUAACUCAAUUAGCCAGUGGACGGGUUGCAUAUACGCAAGG--------------CUGUUACAUUUACAGCUGUAUUGCUGAAUUGUGCAAGCCCUAAUU
........(((((..((...............)).)))))..((((((((((...((((((--------------((((.......))))))...)))).....))))).)))))..... ( -28.36)
>DroYak_CAF1 30881 120 - 1
AUAAAUUGCCGCUUAGCAUUAUAACUCAAUUAGCCAGUGGAUGGGUUGCAUAUACGCAAGGUAGUCCGGCAGAAACAGUUACAUUUACACCUGUAUUGCUGAAUUGUGCAAGCACUAAUU
..........((((.((((.((..........(((...((((...((((......))))....))))))).....((((((((........))))..)))).)).))))))))....... ( -25.70)
>consensus
AUAAAUUGCCGCUUAGCAUUAUAACUCAAUUAGCCAGUGGACGGGUUGCAUAUACGCAAGGUUGUCCGGCAGAAACAGUUACAUUUACAACUGUACUGCCGAAUUGUGCAAGCACUAAUU
...(((((..((((.(((........(((((.((((((((((..(((((......)))))...)))).......((((((........)))))))))))).))))))))))))..))))) (-21.88 = -23.88 +   2.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:15 2006