Locus 2775

Sequence ID 3R_DroMel_CAF1
Location 7,431,511 – 7,431,617
Length 106
Max. P 0.959641
window4499 window4500

overview

Window 9

Location 7,431,511 – 7,431,617
Length 106
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 86.82
Mean single sequence MFE -28.65
Consensus MFE -23.86
Energy contribution -25.30
Covariance contribution 1.44
Combinations/Pair 1.15
Mean z-score -1.82
Structure conservation index 0.83
SVM decision value 0.75
SVM RNA-class probability 0.841607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7431511 106 + 27905053
GCAGCAGCAGUAGCAGUAGUUGCAAACUCUAAUUUCAAGUGUCUUGCCACUAAUGAGGCCGCCCCUUUUGCCCCUUUUCCUGUAUUUGCCACACUUGCUGCUGCUU---
(((((((((((.((((((((.((((((.((.......)).)).)))).))))..((((..((.......)).)))).........)))).))...)))))))))..--- ( -31.10)
>DroSec_CAF1 14364 106 + 1
GCAGCAGCAGUAGCAGUAGUUGCAAACUCUAAUUUCAAGUGUCUUGCCACUAAUGAGGCCGCCCCUUUUGCCGCUUUUCCUGUAUUUGCCACACUUGCUGCAGCUU---
((((((((((..((((((((.((((((.((.......)).)).)))).))))..(((((.((.......)).)))))..))))..))))......)))))).....--- ( -29.10)
>DroEre_CAF1 14289 103 + 1
GAAGUAGCAGCAGCA------GCAAACUCUAAUUUCAAGUGUCUUGCCACUAAUGAGGCCGCCCCUUUUGCCGAUUUUCCUCUAUUUGCCGCACUUUCUGCUGCUGCAC
...(((((((((((.------(((((........(((((((......))))..)))(((..........)))............))))).))......))))))))).. ( -27.80)
>DroYak_CAF1 14834 103 + 1
GCAGCAGCAGCAGCA------GCAAACUCUAAUUUCAAGUGUCUUGCUACUAAUGAGGCCGCCCCUUUUGCCACUUUUCCUGAAUCUGCCGCACUUGCUGCUGAUGUGC
.((((((((((.(((------((((((.((.......)).)).)))))........(((..........)))...............)).))...))))))))...... ( -26.60)
>consensus
GCAGCAGCAGCAGCA______GCAAACUCUAAUUUCAAGUGUCUUGCCACUAAUGAGGCCGCCCCUUUUGCCGCUUUUCCUGUAUUUGCCACACUUGCUGCUGCUG___
...((((((((((((......(((((........(((((((......))))..)))(((..........)))............)))))......)))))))))))).. (-23.86 = -25.30 +   1.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,431,511 – 7,431,617
Length 106
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 86.82
Mean single sequence MFE -36.62
Consensus MFE -26.00
Energy contribution -26.75
Covariance contribution 0.75
Combinations/Pair 1.03
Mean z-score -3.00
Structure conservation index 0.71
SVM decision value 1.50
SVM RNA-class probability 0.959641
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7431511 106 - 27905053
---AAGCAGCAGCAAGUGUGGCAAAUACAGGAAAAGGGGCAAAAGGGGCGGCCUCAUUAGUGGCAAGACACUUGAAAUUAGAGUUUGCAACUACUGCUACUGCUGCUGC
---..(((((((((...((((((............(((((..........)))))..((((.((((...((((.......)))))))).)))).))))))))))))))) ( -38.30)
>DroSec_CAF1 14364 106 - 1
---AAGCUGCAGCAAGUGUGGCAAAUACAGGAAAAGCGGCAAAAGGGGCGGCCUCAUUAGUGGCAAGACACUUGAAAUUAGAGUUUGCAACUACUGCUACUGCUGCUGC
---..((.(((((..((((.....))))......((..(((..((..(((..(((..((((..((((...))))..)))))))..)))..))..)))..))))))).)) ( -32.90)
>DroEre_CAF1 14289 103 - 1
GUGCAGCAGCAGAAAGUGCGGCAAAUAGAGGAAAAUCGGCAAAAGGGGCGGCCUCAUUAGUGGCAAGACACUUGAAAUUAGAGUUUGC------UGCUGCUGCUACUUC
((((((((((((....(((.((.(((.((((....(((.(......).)))))))))).)).)))((((.((.......)).)))).)------))))))))).))... ( -36.80)
>DroYak_CAF1 14834 103 - 1
GCACAUCAGCAGCAAGUGCGGCAGAUUCAGGAAAAGUGGCAAAAGGGGCGGCCUCAUUAGUAGCAAGACACUUGAAAUUAGAGUUUGC------UGCUGCUGCUGCUGC
......((((((((.(((((((((((((.......(.(((..........))).)..((((..((((...))))..))))))))))))------))).)))))))))). ( -38.50)
>consensus
___AAGCAGCAGCAAGUGCGGCAAAUACAGGAAAAGCGGCAAAAGGGGCGGCCUCAUUAGUGGCAAGACACUUGAAAUUAGAGUUUGC______UGCUACUGCUGCUGC
.....(((((((((...((((((...............(((((.((((...)))).(((((..((((...))))..)))))..)))))......))))))))))))))) (-26.00 = -26.75 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:29 2006