Locus 5979

Sequence ID X_DroMel_CAF1
Location 15,382,012 – 15,382,202
Length 190
Max. P 0.931771
window9710 window9711

overview

Window 0

Location 15,382,012 – 15,382,132
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.18
Mean single sequence MFE -35.65
Consensus MFE -28.83
Energy contribution -31.82
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -2.40
Structure conservation index 0.81
SVM decision value 1.22
SVM RNA-class probability 0.931771
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15382012 120 - 22224390
GAUGCUGAAUCUGAUGCUGAUGCUGAAGCUGUAGCUGAAACUGAAGCUAAGGCUGACUCAAGGUGACGUAAUGGCAACGCCUAAAGUGGCUUUUAUACGCUCCACCAGAUCAAGUAUCAA
((((((..(((((..((....))(((((((.(((((........))))).))))...))).((.(.((((..(....)(((......))).....))))).))..)))))..)))))).. ( -38.70)
>DroSec_CAF1 24210 120 - 1
GAUGCUGAAUCUGAUGCUGAUGCCGAAGCUGUAGCUGAAACUGAAGCUAAGGCUGACUCAAGGUGACGUAAUGGCAACGCCUAAAGUGGCUUUUAUACGCUCCACCAGAUCAAGUAUCAA
((((((..(((((.((..(.(((((.((((.(((((........))))).)))).......(....)....)))))..(((......))).........)..)).)))))..)))))).. ( -39.00)
>DroEre_CAF1 21808 114 - 1
GAUGCUGAAUCUGAUGCUGA------AGCUGAAGCUGAAACUGAAGCUAAGGCUGACUCAAGGUGACGUAAUGGCAACGCCUAAAGUGGCUUUUAUACGCUCCACCAGAUCAAGUAUCAA
((((((..(((((.((....------((((..((((........))))..))))....)).((.(.((((..(....)(((......))).....))))).))..)))))..)))))).. ( -36.90)
>DroYak_CAF1 14036 102 - 1
------GAAUCUGAUGCUGA------A------GCUGAAACUGAAGCUAAGGCUGACUCAAGGUGACGUAAUGGCAACGCCUAAAGUGGCUUUUAUACGCUCCACCAGAUCAAGUAUCAA
------.....(((((((..------.------.(((....((.(((.((((((.(((..(((((..((....))..)))))..))))))))).....))).)).)))....))))))). ( -28.00)
>consensus
GAUGCUGAAUCUGAUGCUGA______AGCUGUAGCUGAAACUGAAGCUAAGGCUGACUCAAGGUGACGUAAUGGCAACGCCUAAAGUGGCUUUUAUACGCUCCACCAGAUCAAGUAUCAA
((((((..(((((....(((......((((.(((((........))))).))))...))).((.(.((((..(....)(((......))).....))))).))..)))))..)))))).. (-28.83 = -31.82 +   3.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,382,092 – 15,382,202
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.12
Mean single sequence MFE -31.47
Consensus MFE -16.21
Energy contribution -17.77
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.39
Structure conservation index 0.52
SVM decision value 0.19
SVM RNA-class probability 0.624300
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15382092 110 - 22224390
----------CUGUAUCUGUGGUUAUGACGCCAAAGCUAUAGCUAAAGCUACAGCUAAAACUGAAUCUGAAUCUGAAUCUGAUGCUGAAUCUGAUGCUGAUGCUGAAGCUGUAGCUGAAA
----------.........((((......)))).((((((((((..(((..((((.......((.((...(((.......)))...)).))....))))..)))..)))))))))).... ( -31.60)
>DroSec_CAF1 24290 108 - 1
GUAGCUACAGCUGUUACUG------UGACGCCAAAGCUAAAGCUAACGCUACAGCUAAAACUGAAUCU------GAAUCUGAUGCUGAAUCUGAUGCUGAUGCCGAAGCUGUAGCUGAAA
.((((((((((((((....------.)))((...((((..(((....)))..))))........(((.------..(((.(((.....))).)))...)))))...)))))))))))... ( -33.10)
>DroEre_CAF1 21888 102 - 1
GUAGCUACAGCUGUUACUCUGGCUAUGACGCCAAAG------CUAACGCUACAGCUAAAACUGAAUCU------GAAUCUGAUGCUGAAUCUGAUGCUGA------AGCUGAAGCUGAAA
.(((((.(((((((((((.((((......)))).))------.))))....((((.....(.......------).(((.(((.....))).))))))).------))))).)))))... ( -29.70)
>consensus
GUAGCUACAGCUGUUACUGUGG_UAUGACGCCAAAGCUA_AGCUAACGCUACAGCUAAAACUGAAUCU______GAAUCUGAUGCUGAAUCUGAUGCUGAUGC_GAAGCUGUAGCUGAAA
................((.((((......)))).))...........(((((((((.........((.......))(((.(((.....))).)))...........)))))))))..... (-16.21 = -17.77 +   1.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:08 2006