Locus 2320

Sequence ID 2R_DroMel_CAF1
Location 8,529,139 – 8,529,297
Length 158
Max. P 0.795076
window3819 window3820

overview

Window 9

Location 8,529,139 – 8,529,257
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.29
Mean single sequence MFE -42.08
Consensus MFE -34.35
Energy contribution -34.85
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.82
SVM decision value 0.57
SVM RNA-class probability 0.784817
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8529139 118 + 20766785
CGGUAGCUUCGCGGUGCGUGAGAAAAGAUACACUCGGUAUCAGUUCGAGAUACUUAUG--UAUCUGCAGCUGUAUUUGUAGCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGC
..((.(((((((((((((((((....(((((.....))))).(((...))).))))))--))))((((((((......))))))))))))(((((((((...))))))))).))).)).. ( -45.30)
>DroSec_CAF1 4669 120 + 1
CGGUAGCUUUGCGGUGCGUGAGAAAAGAUACACUCGACAUCAGUUCGAGAUACUUAUGUGUAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCUC
.(((.(((((((.((.(....)...(((((((........(((((..((((((......))))))..)))))....))))))))).))))(((((((((...))))))))).))).))). ( -39.60)
>DroSim_CAF1 7918 120 + 1
CGGUAGCUUUGCGGUGCGUGAGAAAAGAUACACUCGACAGCAGUUCGAGAUACUUAUGUGUAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCUC
.(((.(((((((.((.(....)...(((((((....(((((.((...((((((......)))))))).)))))...))))))))).))))(((((((((...))))))))).))).))). ( -43.70)
>DroYak_CAF1 7631 118 + 1
CGGUAGCUUCGCGGUGCGUGAGAGAAGAUACACUCGGCAUCAGUUCAAGAUACUUAUG--UAUCUGUAGCUGUAUUUGUAUCUGCAGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGC
..((.(((((((.((.(....)...(((((((........(((((..((((((....)--)))))..)))))....))))))))).))))(((((((((...))))))))).))).)).. ( -39.70)
>consensus
CGGUAGCUUCGCGGUGCGUGAGAAAAGAUACACUCGACAUCAGUUCGAGAUACUUAUG__UAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGC
.....(((..((((((((((((..........))))....(((((..((((((......))))))..)))))....)))).)))).((..(((((((((...)))))))))..))))).. (-34.35 = -34.85 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,529,179 – 8,529,297
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.43
Mean single sequence MFE -34.47
Consensus MFE -28.35
Energy contribution -29.35
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.82
SVM decision value 0.60
SVM RNA-class probability 0.795076
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8529179 118 + 20766785
CAGUUCGAGAUACUUAUG--UAUCUGCAGCUGUAUUUGUAGCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGCUGCGAGUUCCUCAAAUUCACUUCUAAUUGAUCCAAAAUUG
..(((..((((((....)--)))))(((((((......))))))))))(((((((..(((.((((.......)))).)))..)(((((.....)))))........))))))........ ( -40.30)
>DroSec_CAF1 4709 120 + 1
CAGUUCGAGAUACUUAUGUGUAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCUCACCGAGUUCCUCAAAUUCACUUCUAAUUGAUUCAAAAUUG
......(((..((((..(((...((((.((((((........))))))..(((((((((...)))))))))..))))..))).))))..)))............................ ( -33.80)
>DroSim_CAF1 7958 120 + 1
CAGUUCGAGAUACUUAUGUGUAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCUCACCGAGUUCCUCAAAUUCACUUCUAAUUGAUUCAAAAUUG
......(((..((((..(((...((((.((((((........))))))..(((((((((...)))))))))..))))..))).))))..)))............................ ( -33.80)
>DroYak_CAF1 7671 118 + 1
CAGUUCAAGAUACUUAUG--UAUCUGUAGCUGUAUUUGUAUCUGCAGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGCUCCAAGUUCCUAAAAUUCACUUCUAAUUGAUUCAAAAUUG
(((((..((((((....)--)))))..)))))..((((.(((.((.((..(((((((((...)))))))))..)).)).....((((...........))))......))).)))).... ( -30.00)
>consensus
CAGUUCGAGAUACUUAUG__UAUCUGCAGCUGUAUUUGUAUCUGCGGCGAUCAAGUGGCGGUGCUACUUGAAAGCAGCGCACCGAGUUCCUCAAAUUCACUUCUAAUUGAUUCAAAAUUG
(((((..((((((......))))))..)))))..((((.(((.((.((..(((((((((...)))))))))..)).)).....(((((.....)))))..........))).)))).... (-28.35 = -29.35 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:45 2006