Locus 7526

Sequence ID X_DroMel_CAF1
Location 18,785,696 – 18,785,823
Length 127
Max. P 0.868939
window12350 window12351 window12352

overview

Window 0

Location 18,785,696 – 18,785,810
Length 114
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 91.99
Mean single sequence MFE -32.22
Consensus MFE -25.73
Energy contribution -26.23
Covariance contribution 0.50
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.80
SVM decision value 0.55
SVM RNA-class probability 0.779723
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18785696 114 + 22224390
AUCUGUUUUUGUAAACUGUAGGAGGAAGGUGAAAGGUGCCUGGGUGAAGUCUAAUGGUGAAAAGUGGGGACUUGGCGGCAAGUGUGUCGCAACCAGGUACCAAACAUACAGAUA--
((((((...(((...((......)).........(((((((((...((((((...(.(....).)..)))))).((((((....))))))..)))))))))..))).)))))).-- ( -39.30)
>DroSec_CAF1 32126 114 + 1
AUCUGUUUUUGUAAACUGUAGGAGGAAGGUGAAAGGUGCCUGGCUGAAGUCUAAUGGUGAAAAGUGGGAACUUCGCGGCAAGUGUGUCGCAAGCAGGUCCCAAACAUACAGAUA--
((((((...(((...((......)).........((..((((.(((((((((.((........)).)).)))))((((((....)))))).))))))..))..))).)))))).-- ( -32.40)
>DroEre_CAF1 30485 111 + 1
AUCUGUUUUUGUAAAGUGUAG---GAAGGUGAAAGGUGUCUGGGUGAAGUCUAAUGGUGAAAAGUGGGGACUUCGCGGCAAGUGUGUCGCCAGCAGGUUCCAAACAUAUAGAUA--
((((((.((((.((..(((..---...(((((.(..((((...(((((((((...(.(....).)..)))))))))))))..)...))))).)))..)).))))...)))))).-- ( -28.50)
>DroYak_CAF1 30351 113 + 1
AUCUGUUUUUGUAAACUGUAG---GAAGGUGAAAGGUGUCUGGGUGAAGUCUAAUGGUGAAAAGUGGCGACUUCGCGGCAAGUGUGUCGCAAGCAGGUUCCAAACAUAUAGAUGGA
((((((...(((...((....---..))......((..((((...((((((...((.(....).))..))))))((((((....))))))...))))..))..))).))))))... ( -28.70)
>consensus
AUCUGUUUUUGUAAACUGUAG___GAAGGUGAAAGGUGCCUGGGUGAAGUCUAAUGGUGAAAAGUGGGGACUUCGCGGCAAGUGUGUCGCAAGCAGGUUCCAAACAUACAGAUA__
((((((...(((..(((..........)))....((..((((...(((((((.((........))..)))))))((((((....))))))...))))..))..))).))))))... (-25.73 = -26.23 +   0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,785,696 – 18,785,810
Length 114
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 91.99
Mean single sequence MFE -21.83
Consensus MFE -17.27
Energy contribution -17.33
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -2.30
Structure conservation index 0.79
SVM decision value 0.86
SVM RNA-class probability 0.868939
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18785696 114 - 22224390
--UAUCUGUAUGUUUGGUACCUGGUUGCGACACACUUGCCGCCAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGGCACCUUUCACCUUCCUCCUACAGUUUACAAAAACAGAU
--.((((((.((...(((.(((((..(((.((....)).))).(((((.................)))))...))))).)))...)).............(....)....)))))) ( -21.33)
>DroSec_CAF1 32126 114 - 1
--UAUCUGUAUGUUUGGGACCUGCUUGCGACACACUUGCCGCGAAGUUCCCACUUUUCACCAUUAGACUUCAGCCAGGCACCUUUCACCUUCCUCCUACAGUUUACAAAAACAGAU
--.((((((.((...((..((((((.(((.((....)).)))((((((.................)))))))).))))..))...)).............(....)....)))))) ( -21.93)
>DroEre_CAF1 30485 111 - 1
--UAUCUAUAUGUUUGGAACCUGCUGGCGACACACUUGCCGCGAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGACACCUUUCACCUUC---CUACACUUUACAAAAACAGAU
--........(((((((.....((.(((((.....)))))))((((((.................))))))..)))))))............---..................... ( -22.33)
>DroYak_CAF1 30351 113 - 1
UCCAUCUAUAUGUUUGGAACCUGCUUGCGACACACUUGCCGCGAAGUCGCCACUUUUCACCAUUAGACUUCACCCAGACACCUUUCACCUUC---CUACAGUUUACAAAAACAGAU
...((((...(((((((.........(((.((....)).)))((((((.................))))))..)))))))............---.....((((....)))))))) ( -21.73)
>consensus
__UAUCUAUAUGUUUGGAACCUGCUUGCGACACACUUGCCGCGAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGACACCUUUCACCUUC___CUACAGUUUACAAAAACAGAU
...((((...(((((((.........(((.((....)).)))((((((.................))))))..)))))))....................((((....)))))))) (-17.27 = -17.33 +   0.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,785,733 – 18,785,823
Length 90
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 88.89
Mean single sequence MFE -17.79
Consensus MFE -14.24
Energy contribution -14.05
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -1.46
Structure conservation index 0.80
SVM decision value 0.09
SVM RNA-class probability 0.579106
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18785733 90 - 22224390
CCUGCCACAUCUU------UAUCUGUAUGUUUGGUACCUGGUUGCGACACACUUGCCGCCAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGGC
((((.....(((.------....((...((..((.((.((((.((((.....)))).)))).))))..))....)).....))).......)))). ( -16.20)
>DroSec_CAF1 32163 90 - 1
CCUGCCACAACUU------UAUCUGUAUGUUUGGGACCUGCUUGCGACACACUUGCCGCGAAGUUCCCACUUUUCACCAUUAGACUUCAGCCAGGC
((((.((((....------....))).....(((((.((..(((((.((....)).))))))).)))))....................).)))). ( -17.80)
>DroEre_CAF1 30519 90 - 1
CCUGCCACAUCUC------UAUCUAUAUGUUUGGAACCUGCUGGCGACACACUUGCCGCGAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGAC
.............------.........((((((.....((.(((((.....)))))))((((((.................))))))..)))))) ( -19.93)
>DroYak_CAF1 30385 96 - 1
CCCGCCACAUCUCCAUCUCCAUCUAUAUGUUUGGAACCUGCUUGCGACACACUUGCCGCGAAGUCGCCACUUUUCACCAUUAGACUUCACCCAGAC
............................((((((.........(((.((....)).)))((((((.................))))))..)))))) ( -17.23)
>consensus
CCUGCCACAUCUC______UAUCUAUAUGUUUGGAACCUGCUUGCGACACACUUGCCGCGAAGUCCCCACUUUUCACCAUUAGACUUCACCCAGAC
............................((((((.........(((.((....)).)))((((((.................))))))..)))))) (-14.24 = -14.05 +  -0.19)

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 12:41:11 2006