Locus 880

Sequence ID 3L_DroMel_CAF1
Location 2,670,020 – 2,670,112
Length 92
Max. P 0.996575
window1352 window1353

overview

Window 2

Location 2,670,020 – 2,670,112
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 96.63
Mean single sequence MFE -23.40
Consensus MFE -20.20
Energy contribution -20.40
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.86
SVM decision value 0.48
SVM RNA-class probability 0.752861
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2670020 92 + 23771897
AUUUUUUCCUAUGCAUUAAGGACGAUCCAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACGCUAAGUGCUUUGGCUGCAGCGCUUU
............((.....((.....))......((((((((........((((((((.......))))..))))..))))))))))..... ( -25.10)
>DroSec_CAF1 31098 92 + 1
AUUUUUUCCUAUGCAUUACGGACGAUCCAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACACUAAGUGCUUUGGCUGCAGCGCUUU
............((.....((.....))......((((((((....((....))(((((............))))).))))))))))..... ( -21.70)
>DroSim_CAF1 29680 92 + 1
AUUUUUUCCUAUGCAUUAAGAACGAUCCAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACGCUAAGUGCUUUGGCUGCAGCGCUUU
.........((((.(((......))).))))...((((((((........((((((((.......))))..))))..))))))))....... ( -21.90)
>DroEre_CAF1 31911 92 + 1
AUUUUUUCGUAUGCAUUAAGUACGAUCCAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACGCUAAGUGCUUUGGCUGCAGCGCUUU
......((((((.......)))))).........((((((((........((((((((.......))))..))))..))))))))....... ( -25.90)
>DroYak_CAF1 30633 92 + 1
AUUUUUUGCCAUGCAUUAAGGACGAUACAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACGCUAAGUGCUUUGGCUGCAGCGCUUU
.......((.(((.(((......))).)))....((((((((........((((((((.......))))..))))..))))))))))..... ( -22.40)
>consensus
AUUUUUUCCUAUGCAUUAAGGACGAUCCAUAUAGUGCAGCCAUCUCGUUCGCACAGCGCAAAUUACGCUAAGUGCUUUGGCUGCAGCGCUUU
............((.....(.......)......((((((((........((((((((.......))))..))))..))))))))))..... (-20.20 = -20.40 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,670,020 – 2,670,112
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 96.63
Mean single sequence MFE -27.20
Consensus MFE -24.40
Energy contribution -24.08
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -2.17
Structure conservation index 0.90
SVM decision value 2.72
SVM RNA-class probability 0.996575
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2670020 92 - 23771897
AAAGCGCUGCAGCCAAAGCACUUAGCGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGGAUCGUCCUUAAUGCAUAGGAAAAAAU
.......((((((((..((((..(((((.....)))))))))........))))))))............((((........))))...... ( -26.70)
>DroSec_CAF1 31098 92 - 1
AAAGCGCUGCAGCCAAAGCACUUAGUGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGGAUCGUCCGUAAUGCAUAGGAAAAAAU
...(((.((((((((..((((..(((((.....)))))))))........))))))))...(((((.....))))).)))............ ( -28.20)
>DroSim_CAF1 29680 92 - 1
AAAGCGCUGCAGCCAAAGCACUUAGCGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGGAUCGUUCUUAAUGCAUAGGAAAAAAU
.......((((((((..((((..(((((.....)))))))))........))))))))............((((((.....))))))..... ( -25.70)
>DroEre_CAF1 31911 92 - 1
AAAGCGCUGCAGCCAAAGCACUUAGCGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGGAUCGUACUUAAUGCAUACGAAAAAAU
.......((((((((..((((..(((((.....)))))))))........)))))))).........(((((.........)))))...... ( -25.80)
>DroYak_CAF1 30633 92 - 1
AAAGCGCUGCAGCCAAAGCACUUAGCGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGUAUCGUCCUUAAUGCAUGGCAAAAAAU
...((..((((((((..((((..(((((.....)))))))))........))))))))...(((((((........)))))))))....... ( -29.60)
>consensus
AAAGCGCUGCAGCCAAAGCACUUAGCGUAAUUUGCGCUGUGCGAACGAGAUGGCUGCACUAUAUGGAUCGUCCUUAAUGCAUAGGAAAAAAU
.......((((((((..((((..(((((.....)))))))))........))))))))...((((.((........)).))))......... (-24.40 = -24.08 +  -0.32)

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 09:53:27 2006