Locus 379

Sequence ID 3R_DroMel_CAF1
Location 1,451,634 – 1,451,829
Length 195
Max. P 0.985967
window630 window631

overview

Window 0

Location 1,451,634 – 1,451,749
Length 115
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 83.19
Mean single sequence MFE -24.58
Consensus MFE -16.40
Energy contribution -17.90
Covariance contribution 1.50
Combinations/Pair 1.16
Mean z-score -1.81
Structure conservation index 0.67
SVM decision value 0.35
SVM RNA-class probability 0.698251
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1451634 115 + 27905053
AGUUUUUUAAAAGAGAAUAAAACAACAUCUAGUUUAAAAAACAAAUUCGUCUUUGAGGGUCUCCUAUUUGUUUGCACACAGUAGUGAUUAGCCAUCGUGGAUGGACUUUUUCUUA
.((((((((((..(((...........)))..))))))))))...(((((((.(((.(((.((((((((((....))).))))).))...))).))).))))))).......... ( -25.70)
>DroSec_CAF1 24232 115 + 1
AGUUUUUUAAAAGAGAAUAAAACAACAUCUAGUUUAAAAAACAAAUUCGUCUUUGAGGGUCUCACAUUUGUCUACACACAAAAGGUGUUAGCCAUCGUGGAUGGUCUAUUGUUUA
.((((((((((..(((...........)))..))))))))))....((((((.(((.(((..(((.(((((......)))))..)))...))).))).))))))........... ( -25.70)
>DroSim_CAF1 22547 108 + 1
AGUUUUUUAAAAGAGAAUAAAACAACAUCUAGUUUAAAAAACAAAUUCGUCUUUGAGGGUCUCACAUUUGUCUGCACACAGUAGGUGUUAGCCAUCGUGGAUGGUCUA-------
.((((((((((..(((...........)))..))))))))))....((((((.(((.((.((.(((((((.(((....)))))))))).)))).))).))))))....------- ( -29.00)
>DroEre_CAF1 25750 103 + 1
AGUUUUUUAAAAGAGAAUAAAACAACAUCUAGUUUAAAAAACAAAUUCGUCUUUGAGGGUCUCAUAUUUGUUUACAAACUG------CUGAUCAGUUUGGCUUGUAUAU------
.((((((((((..(((...........)))..))))))))))...((((....))))......((((..((...(((((((------.....)))))))))..))))..------ ( -17.90)
>consensus
AGUUUUUUAAAAGAGAAUAAAACAACAUCUAGUUUAAAAAACAAAUUCGUCUUUGAGGGUCUCACAUUUGUCUACACACAGUAGGUGUUAGCCAUCGUGGAUGGUCUAU______
.((((((((((..(((...........)))..))))))))))....((((((.(((.(((..(((..((((......))))...)))...))).))).))))))........... (-16.40 = -17.90 +   1.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,451,709 – 1,451,829
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 70.92
Mean single sequence MFE -21.17
Consensus MFE -11.35
Energy contribution -12.13
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.27
Structure conservation index 0.54
SVM decision value 2.02
SVM RNA-class probability 0.985967
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1451709 120 - 27905053
AGGGUAUACUAGAAUCUGAUAAGCAUAUCAAGAUUCAAAACAUAAAAGAAUAGGACAAGGUGAAGUCAUUUGAACUGCAAUAAGAAAAAGUCCAUCCACGAUGGCUAAUCACUACUGUGU
.((((......((((((((((....)))).))))))................((((.(((((....)))))...((......)).....))))))))............(((....))). ( -22.40)
>DroSec_CAF1 24307 97 - 1
------UACUAGCAUCUGAUA-----------------AACAUAAAACAAUAGUCCAAAGUGAAUUGCUUUGAACUGCAAUAAACAAUAGACCAUCCACGAUGGCUAACACCUUUUGUGU
------...............-----------------.((((((((...((((.((((((.....)))))).))))..........(((.(((((...)))))))).....)))))))) ( -19.60)
>DroSim_CAF1 22622 90 - 1
------UACUAGCAUAUGAUA-----------------AACAUAAAACAAUAGGCCAAAGUAAAUUGCUUUGGACUGCAA-------UAGACCAUCCACGAUGGCUAACACCUACUGUGU
------........((((...-----------------..))))..(((.(((((((((((.....))))))).......-------(((.(((((...))))))))...)))).))).. ( -21.50)
>consensus
______UACUAGCAUCUGAUA_________________AACAUAAAACAAUAGGCCAAAGUGAAUUGCUUUGAACUGCAAUAA__AAUAGACCAUCCACGAUGGCUAACACCUACUGUGU
.......................................(((((......(((..((((((.....))))))..)))..........(((.(((((...))))))))........))))) (-11.35 = -12.13 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:50 2006