Locus 2417

Sequence ID X_DroMel_CAF1
Location 6,468,084 – 6,468,176
Length 92
Max. P 0.557338
window3930 window3931

overview

Window 0

Location 6,468,084 – 6,468,176
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 84.45
Mean single sequence MFE -25.52
Consensus MFE -17.35
Energy contribution -18.13
Covariance contribution 0.78
Combinations/Pair 1.10
Mean z-score -2.26
Structure conservation index 0.68
SVM decision value -0.03
SVM RNA-class probability 0.517326
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6468084 92 + 22224390
GGUAAUGGU------AAUGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUACGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
.........------..((((..((((..((((.((((.((((((..(((((....)))))...))).)))...)))).))))..))))..))))... ( -26.10)
>DroSec_CAF1 22326 92 + 1
GGUAAUGGU------AAUGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUACGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
.........------..((((..((((..((((.((((.((((((..(((((....)))))...))).)))...)))).))))..))))..))))... ( -26.10)
>DroSim_CAF1 22801 98 + 1
GGUAAUGGUAAUGGAAAUGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUGCGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
.................((((..((((..((((.((((.((((((..(((((....)))))...))).)))...)))).))))..))))..))))... ( -26.10)
>DroEre_CAF1 21536 98 + 1
GGUAAUGCUAAUGCCAAUGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUACGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
((((.......))))..((((..((((..((((.((((.((((((..(((((....)))))...))).)))...)))).))))..))))..))))... ( -29.00)
>DroYak_CAF1 22104 86 + 1
GGUAA------------UGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUACGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
.....------------((((..((((..((((.((((.((((((..(((((....)))))...))).)))...)))).))))..))))..))))... ( -26.10)
>DroAna_CAF1 27755 83 + 1
AGGAAUGGU------AAUGCCAAUGGAAAUGGAGAUGGU--CUAGAAGGCCC-C-----GUGGACAAUUGCCAAUUAUGAGCAAA-GCAGAUCCAGUU
.(((.((((------(((.(((.(((..........(((--(.....)))))-)-----))))...))))))).......((...-))...))).... ( -19.70)
>consensus
GGUAAUGGU______AAUGGAAAUGGAAAUGGAGAUGGAGCAUUGGAGGUCUUUACGGACUAGACAAUUGCCAAUUAUGUUCAGGUCCAGAUCCAGUU
.......................((((..((((....(((((((((..((((.........)))).....)))...))))))...))))..))))... (-17.35 = -18.13 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 6,468,084 – 6,468,176
Length 92
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 84.45
Mean single sequence MFE -15.58
Consensus MFE -13.29
Energy contribution -13.40
Covariance contribution 0.11
Combinations/Pair 1.16
Mean z-score -1.45
Structure conservation index 0.85
SVM decision value 0.05
SVM RNA-class probability 0.557338
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6468084 92 - 22224390
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGUAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCAUU------ACCAUUACC
...((((..((((..((......(((((.....((((.........))))..)))))....))..))))..))))........------......... ( -15.70)
>DroSec_CAF1 22326 92 - 1
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGUAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCAUU------ACCAUUACC
...((((..((((..((......(((((.....((((.........))))..)))))....))..))))..))))........------......... ( -15.70)
>DroSim_CAF1 22801 98 - 1
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGCAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCAUUUCCAUUACCAUUACC
...((((..((((..((......(((((.....((((.........))))..)))))....))..))))..))))....................... ( -15.70)
>DroEre_CAF1 21536 98 - 1
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGUAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCAUUGGCAUUAGCAUUACC
....(((.((((((.....((....))......)))))))))............((((((......(((.............)))....))))))... ( -16.82)
>DroYak_CAF1 22104 86 - 1
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGUAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCA------------UUACC
...((((..((((..((......(((((.....((((.........))))..)))))....))..))))..))))......------------..... ( -15.70)
>DroAna_CAF1 27755 83 - 1
AACUGGAUCUGC-UUUGCUCAUAAUUGGCAAUUGUCCAC-----G-GGGCCUUCUAG--ACCAUCUCCAUUUCCAUUGGCAUU------ACCAUUCCU
...(((((....-.((((.((....))))))..))))).-----(-(.(((......--..................)))...------.))...... ( -13.86)
>consensus
AACUGGAUCUGGACCUGAACAUAAUUGGCAAUUGUCUAGUCCGUAAAGACCUCCAAUGCUCCAUCUCCAUUUCCAUUUCCAUU______ACCAUUACC
...((((..((((..((......(((((.....((((.........))))..)))))....))..))))..))))....................... (-13.29 = -13.40 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:58 2006