Locus 4579

Sequence ID 3R_DroMel_CAF1
Location 12,076,904 – 12,077,049
Length 145
Max. P 0.868360
window7514 window7515

overview

Window 4

Location 12,076,904 – 12,077,009
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.32
Mean single sequence MFE -28.02
Consensus MFE -16.26
Energy contribution -16.94
Covariance contribution 0.68
Combinations/Pair 1.08
Mean z-score -2.29
Structure conservation index 0.58
SVM decision value 0.86
SVM RNA-class probability 0.868360
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12076904 105 + 27905053
UUGGUGUCAAUAUUCCUAUC----------AAAGGAGGUUCCCAACAGCAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCA-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCU
.((.(((.....(((((...----------..))))).......))).))....((((..((((.(.(((........)))).-----))))))))((((((((....)))))))).... ( -21.70)
>DroSec_CAF1 13646 105 + 1
UUGGUGUCAAUAUUCCUAUC----------GAAGGAAGUUCCCACCAACAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCU-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCU
((((((..(((.(((((...----------..))))))))..))))))......((((..((((((.(((........)))))-----))))))))((((((((....)))))))).... ( -32.40)
>DroSim_CAF1 13848 105 + 1
UUGGUGUCAAUAUUCCUAUC----------GAAGGAAGUUCCCACCAGCAUACAGGUAUUGCUCUGACUACUUCUUAUUAGCU-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCU
((((((..(((.(((((...----------..))))))))..))))))......((((..((((.(.(((........)))).-----))))))))((((((((....)))))))).... ( -27.50)
>DroEre_CAF1 15590 111 + 1
----UGUCGAUAUUCCUAUCAAUUCCCAUAGAAGGAAGUUGCCACCAUCAUACAGGUAUUGCUCAGACUAUUUCUUAUUAGCU-----AGGCAAUCAAUCGACCAACAGGUUGAUUUCCU
----....((((....))))............((((((((((((((........)))...(((.(((.....)))....))).-----.))))))..(((((((....)))))))))))) ( -24.70)
>DroYak_CAF1 15826 109 + 1
UUGGUGUCAAUAUUCCUAUUAAUUCCGAUCGUAGGAAGGGCCCACCA-----------UUGCUCAGACCUCUUCUUAUUAGCUGGACUGGGCAAUCAAUCGACCAACAGGUUGAUUUCCU
.(((.(((....(((((((...........))))))).))))))..(-----------((((((((.((.((.......))..)).))))))))).((((((((....)))))))).... ( -33.80)
>consensus
UUGGUGUCAAUAUUCCUAUC__________GAAGGAAGUUCCCACCAGCAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCU_____GGGCUAUCAAUCGACCAACAGGUUGAUUUCCU
.(((((......(((((...............))))).....))))).............(((.(((.....)))....)))......(((..(((((((........)))))))..))) (-16.26 = -16.94 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 12,076,934 – 12,077,049
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.23
Mean single sequence MFE -28.37
Consensus MFE -20.52
Energy contribution -21.44
Covariance contribution 0.92
Combinations/Pair 1.07
Mean z-score -2.11
Structure conservation index 0.72
SVM decision value 0.52
SVM RNA-class probability 0.768777
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12076934 115 + 27905053
CCCAACAGCAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCA-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUCAUUCCCAUUUCGAGUCGCCCCGCUACUUGGC
.((((.((((.........))))...............((((.-----((((..((((((((((....))))))))...(((.(((...))).)))....))...)))).)))).)))). ( -27.90)
>DroSec_CAF1 13676 115 + 1
CCCACCAACAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCU-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUAAUUCCCAUUUCGAGUCGCCCCGCUACUUGGC
............((((....((((((.(((........)))))-----))))....((((((((....)))))))).)))).................((((((.((...)).)))))). ( -29.10)
>DroSim_CAF1 13878 115 + 1
CCCACCAGCAUACAGGUAUUGCUCUGACUACUUCUUAUUAGCU-----GGGCUAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUCAUUCCCAUUUCGAGUCGCCCCGCUACUUGGC
....((((....((((......))))............((((.-----((((..((((((((((....))))))))...(((.(((...))).)))....))...)))).)))).)))). ( -27.80)
>DroEre_CAF1 15626 115 + 1
GCCACCAUCAUACAGGUAUUGCUCAGACUAUUUCUUAUUAGCU-----AGGCAAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUCAUUCCCAUUUCGAGUCGACCCGCUACUUGGC
((((..........(((...(((((((.....))).....(((-----(((.((((((((........)))))))).)))))).................))))..))).......)))) ( -29.43)
>DroYak_CAF1 15866 109 + 1
CCCACCA-----------UUGCUCAGACCUCUUCUUAUUAGCUGGACUGGGCAAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUCAUUCCCAUCUCAAGUCGUCCCGCUACUUGGC
.(((..(-----------((((((((.((.((.......))..)).))))))))).((((((((....))))))))...)))................((((((.(.....).)))))). ( -27.60)
>consensus
CCCACCAGCAUACAGGUAUUGCUCAGACUACUUCUUAUUAGCU_____GGGCUAUCAAUCGACCAACAGGUUGAUUUCCUGGCAAUUUCAUUCCCAUUUCGAGUCGCCCCGCUACUUGGC
.................(((((.(((............(((((......)))))..((((((((....))))))))..))))))))............((((((.((...)).)))))). (-20.52 = -21.44 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:28 2006