Locus 6631

Sequence ID 3R_DroMel_CAF1
Location 17,433,832 – 17,433,951
Length 119
Max. P 0.981533
window10795 window10796

overview

Window 5

Location 17,433,832 – 17,433,951
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.03
Mean single sequence MFE -31.90
Consensus MFE -25.08
Energy contribution -25.64
Covariance contribution 0.56
Combinations/Pair 1.25
Mean z-score -2.52
Structure conservation index 0.79
SVM decision value 1.89
SVM RNA-class probability 0.981533
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17433832 119 + 27905053
AAGCGUCUUCGAAUUUCCUGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAAACUAAUUAUAGACAUUUUGGACUCAAUUAGGGGCAGUCAAUUAGGGGA-AACGAAGUUCUCG
......(((((..(..((((((((((((.........((..(((.....)))..))...((((((.....(.....).....)))))).))))))))..))))..)-..)))))...... ( -34.10)
>DroSec_CAF1 37824 119 + 1
AAGCGUCUUUAAAUCUCCCGUGACUGCCAAUUUUAAAGUUCUCCACACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGA-AACUAAGUUCUCG
......(((....(((((..((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))....)))))-....)))...... ( -28.60)
>DroSim_CAF1 34965 120 + 1
AAGCGUCUUUAAAUCUCCUGUGACUGCCAAUUUUAAAGUUCUCCACACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGAAAACGAAGUUCUCG
......((((...(((((((((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))..)))))))....))))...... ( -30.70)
>DroEre_CAF1 37570 119 + 1
GAGGACCUUUUAAUCUCCAGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAGACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGA-AAAGAAGUUCUCG
((((((.((((..(((((..((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))....)))))-..)))))))))). ( -37.40)
>DroYak_CAF1 37986 116 + 1
GAGCAUCUUUUUAUCUUUUGUGACUGCCAAUUCUAAAGUUCUUCAAACUGGAUUGCAAACUAAUUGUAGACAUUUUAGACUCAAUUAAGUGCAGUCAAUUAGGGU----AGAAGUUCUCG
(((....((((((((((...(((((((((((((...((((.....))))))))))...((((((((.((.(......).))))))).))))))))))...)))))----)))))..))). ( -28.70)
>consensus
AAGCGUCUUUAAAUCUCCUGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGA_AACGAAGUUCUCG
......(((((..((((((.((((((((.........((..(((.....)))..))...((((...........))))...........))))))))...))))))...)))))...... (-25.08 = -25.64 +   0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,433,832 – 17,433,951
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.03
Mean single sequence MFE -27.92
Consensus MFE -20.92
Energy contribution -21.28
Covariance contribution 0.36
Combinations/Pair 1.18
Mean z-score -1.66
Structure conservation index 0.75
SVM decision value 0.15
SVM RNA-class probability 0.605223
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17433832 119 - 27905053
CGAGAACUUCGUU-UCCCCUAAUUGACUGCCCCUAAUUGAGUCCAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACAGGAAAUUCGAAGACGCUU
.(((..(((((..-(..(((...((((((((.(((((((((.(......).)).))))))).......(((.....))).............)))))))).)))..)..)))))...))) ( -29.90)
>DroSec_CAF1 37824 119 - 1
CGAGAACUUAGUU-UCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUGUGGAGAACUUUAAAAUUGGCAGUCACGGGAGAUUUAAAGACGCUU
.(((..(((((((-((((.....((((((((.(((((((((.(......).)).)))))))((..((......))..)).............)))))))).))))))))..)))...))) ( -31.00)
>DroSim_CAF1 34965 120 - 1
CGAGAACUUCGUUUUCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUGUGGAGAACUUUAAAAUUGGCAGUCACAGGAGAUUUAAAGACGCUU
.((((((...)))))).(((...((((((((.(((((((((.(......).)).)))))))((..((......))..)).............)))))))).)))................ ( -27.10)
>DroEre_CAF1 37570 119 - 1
CGAGAACUUCUUU-UCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUCUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACUGGAGAUUAAAAGGUCCUC
.(((.((((.((.-((.((....((((((((.(((((((((.(......).)).)))))))(((.(((......))).)))...........))))))))..)).))..)).)))).))) ( -31.10)
>DroYak_CAF1 37986 116 - 1
CGAGAACUUCU----ACCCUAAUUGACUGCACUUAAUUGAGUCUAAAAUGUCUACAAUUAGUUUGCAAUCCAGUUUGAAGAACUUUAGAAUUGGCAGUCACAAAAGAUAAAAAGAUGCUC
.(((..(((..----...((...(((((((..(((((((((.(......).)).))))))).........(((((((((....))))).)))))))))))....)).....)))...))) ( -20.50)
>consensus
CGAGAACUUCGUU_UCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACAGGAGAUUAAAAGACGCUU
.(((..(((.(...((.(((...((((((((.(((((((((.(......).)).))))))).......(((.....))).............)))))))).))).))..).)))...))) (-20.92 = -21.28 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:22 2006