Locus 3163

Sequence ID 2L_DroMel_CAF1
Location 9,055,666 – 9,055,764
Length 98
Max. P 0.970827
window5029 window5030

overview

Window 9

Location 9,055,666 – 9,055,764
Length 98
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 95.45
Mean single sequence MFE -21.12
Consensus MFE -18.73
Energy contribution -19.35
Covariance contribution 0.62
Combinations/Pair 1.03
Mean z-score -3.04
Structure conservation index 0.89
SVM decision value 1.66
SVM RNA-class probability 0.970827
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9055666 98 + 22407834
CCGAAAUAUAUUUAUGCAUAUGUUUAAUAUAUUU-UUGCCUGCUUUUUUAGGUUUAUGCAAAUGGUCUGUUUUAGUUUGGAUUUAAGCAGGCAUUUUCU
..((((((((((...((....))..)))))))))-)(((((((((.((((..((...(((.......)))...))..))))...)))))))))...... ( -24.90)
>DroSec_CAF1 49565 99 + 1
CCGAAAUAUAUUUAUGCAUAUGUUUAAUAUAUUUUUUGCCUGCUUUUUUAGGUUUAUGCAAAUGCUCUAUUUUAGUUUUGAUUUAAGCAGGCAUUUUCU
..((((((((((...((....))..)))))))))).(((((((((..(((((.(((.((....)).......))).)))))...)))))))))...... ( -22.20)
>DroSim_CAF1 55127 99 + 1
CCGAAAUAUAUUUAUGCAUAUGUUUAAUAUAUUUUUUGCCUGCUUUUUUAGGUUUAUGCAAAUGCUCUAUUUUAGUUUUGAUUUAAGCAGGCAUUUUCU
..((((((((((...((....))..)))))))))).(((((((((..(((((.(((.((....)).......))).)))))...)))))))))...... ( -22.20)
>DroEre_CAF1 51951 98 + 1
CCAAAAUAUAUAAAUGCACAUGUUUAAUAUAUUUUUU-CCUGCUUUUUUAGGUUUAUGCAAAUGCUCUAUUUUAGUUUUGAUUUAAGCAGGCAUUUUCU
..(((((((((((((......)))).)))))))))..-(((((((..(((((.(((.((....)).......))).)))))...)))))))........ ( -15.20)
>consensus
CCGAAAUAUAUUUAUGCAUAUGUUUAAUAUAUUUUUUGCCUGCUUUUUUAGGUUUAUGCAAAUGCUCUAUUUUAGUUUUGAUUUAAGCAGGCAUUUUCU
..((((((((((...((....))..)))))))))).((((((((....((((((...(((((........))).))...))))))))))))))...... (-18.73 = -19.35 +   0.62)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,055,666 – 9,055,764
Length 98
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 95.45
Mean single sequence MFE -16.49
Consensus MFE -14.18
Energy contribution -14.30
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -3.07
Structure conservation index 0.86
SVM decision value 1.35
SVM RNA-class probability 0.945387
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9055666 98 - 22407834
AGAAAAUGCCUGCUUAAAUCCAAACUAAAACAGACCAUUUGCAUAAACCUAAAAAAGCAGGCAA-AAAUAUAUUAAACAUAUGCAUAAAUAUAUUUCGG
......(((((((((.......................................))))))))).-(((((((((.............)))))))))... ( -14.75)
>DroSec_CAF1 49565 99 - 1
AGAAAAUGCCUGCUUAAAUCAAAACUAAAAUAGAGCAUUUGCAUAAACCUAAAAAAGCAGGCAAAAAAUAUAUUAAACAUAUGCAUAAAUAUAUUUCGG
......(((((((((.........(((...))).((....))............)))))))))..(((((((((.............)))))))))... ( -18.42)
>DroSim_CAF1 55127 99 - 1
AGAAAAUGCCUGCUUAAAUCAAAACUAAAAUAGAGCAUUUGCAUAAACCUAAAAAAGCAGGCAAAAAAUAUAUUAAACAUAUGCAUAAAUAUAUUUCGG
......(((((((((.........(((...))).((....))............)))))))))..(((((((((.............)))))))))... ( -18.42)
>DroEre_CAF1 51951 98 - 1
AGAAAAUGCCUGCUUAAAUCAAAACUAAAAUAGAGCAUUUGCAUAAACCUAAAAAAGCAGG-AAAAAAUAUAUUAAACAUGUGCAUUUAUAUAUUUUGG
........(((((((.........(((...))).((....))............)))))))-..(((((((((...............))))))))).. ( -14.36)
>consensus
AGAAAAUGCCUGCUUAAAUCAAAACUAAAAUAGAGCAUUUGCAUAAACCUAAAAAAGCAGGCAAAAAAUAUAUUAAACAUAUGCAUAAAUAUAUUUCGG
.((((.(((((((((.........((.....)).((....))............)))))))))...............((((......)))).)))).. (-14.18 = -14.30 +   0.12)

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 10:45:53 2006