Locus 4892

Sequence ID 2L_DroMel_CAF1
Location 13,958,853 – 13,958,950
Length 97
Max. P 0.993407
window7754 window7755

overview

Window 4

Location 13,958,853 – 13,958,950
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 92.87
Mean single sequence MFE -19.14
Consensus MFE -16.16
Energy contribution -16.84
Covariance contribution 0.68
Combinations/Pair 1.08
Mean z-score -2.24
Structure conservation index 0.84
SVM decision value 2.40
SVM RNA-class probability 0.993407
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13958853 97 + 22407834
GGUCAUUAAUUACAUCUUAAAAAAUAAAUAAAAGAACCAGCUCGCUUACAUCACAAUUUUGCGAAUGUUUUUGUGAUAAAUGAUGAUAACUGAUUCC
.((((((.((((((((((.............))))..((..((((...............)))).))....)))))).))))))............. ( -14.08)
>DroSec_CAF1 46637 92 + 1
GAUCAUUUAUUACAUCUUUAA-----AAUAAAAGAACCAGCUCGCUUACAUCACAAUUUUGCGAAUGCUUUUGUGAUAAAUGAUGAUAACUGAUUCC
.((((((((((((((((((..-----....)))))...(((((((...............))))..)))..)))))))))))))............. ( -21.16)
>DroSim_CAF1 46757 92 + 1
GAUCAUUUAUUACAUCUUUAA-----AAUAAAAGAACCAGCUCGCUUACAUCACAAUUUUGCGAAUGCUUUUGUGAUAAAUGAUGAUAACUGAUUCC
.((((((((((((((((((..-----....)))))...(((((((...............))))..)))..)))))))))))))............. ( -21.16)
>DroEre_CAF1 47686 92 + 1
GAUCAUUCAUUACAUCUUUAA-----AAUGAAAGAACCAGCUCGCUUACAUCACAGUUUUGCAAAUGCUUUUGUGAUAAAUGAUGAUAACUGAUUCC
(((((.((((((..(((((..-----....)))))..............(((((((....((....))..)))))))...))))))....))))).. ( -16.50)
>DroYak_CAF1 48083 92 + 1
GAUCAUUUAUUACCUCUUUAA-----AAUGAAAGAACCAGCUCGCUUACAUCACAGUUGUGCGAAUGCUUGUGUGAUAAAUGAUGAUAACUGAUUCC
.((((((((((((.(((((..-----....)))))((.(((((((..((......))...))))..))).))))))))))))))............. ( -22.80)
>consensus
GAUCAUUUAUUACAUCUUUAA_____AAUAAAAGAACCAGCUCGCUUACAUCACAAUUUUGCGAAUGCUUUUGUGAUAAAUGAUGAUAACUGAUUCC
.((((((((((((((((((...........)))))...(((((((...............))))..)))..)))))))))))))............. (-16.16 = -16.84 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 13,958,853 – 13,958,950
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 92.87
Mean single sequence MFE -18.63
Consensus MFE -16.72
Energy contribution -17.32
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.90
SVM decision value 0.49
SVM RNA-class probability 0.757568
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13958853 97 - 22407834
GGAAUCAGUUAUCAUCAUUUAUCACAAAAACAUUCGCAAAAUUGUGAUGUAAGCGAGCUGGUUCUUUUAUUUAUUUUUUAAGAUGUAAUUAAUGACC
((((((((((.........((((((((..............))))))))......)))))))))).....(((((..(((.....)))..))))).. ( -17.00)
>DroSec_CAF1 46637 92 - 1
GGAAUCAGUUAUCAUCAUUUAUCACAAAAGCAUUCGCAAAAUUGUGAUGUAAGCGAGCUGGUUCUUUUAUU-----UUAAAGAUGUAAUAAAUGAUC
((((((((((.........((((((((..((....))....))))))))......))))))))))......-----..................... ( -18.56)
>DroSim_CAF1 46757 92 - 1
GGAAUCAGUUAUCAUCAUUUAUCACAAAAGCAUUCGCAAAAUUGUGAUGUAAGCGAGCUGGUUCUUUUAUU-----UUAAAGAUGUAAUAAAUGAUC
((((((((((.........((((((((..((....))....))))))))......))))))))))......-----..................... ( -18.56)
>DroEre_CAF1 47686 92 - 1
GGAAUCAGUUAUCAUCAUUUAUCACAAAAGCAUUUGCAAAACUGUGAUGUAAGCGAGCUGGUUCUUUCAUU-----UUAAAGAUGUAAUGAAUGAUC
((((((((((.........(((((((...((....)).....)))))))......)))))))))).(((((-----(............)))))).. ( -19.86)
>DroYak_CAF1 48083 92 - 1
GGAAUCAGUUAUCAUCAUUUAUCACACAAGCAUUCGCACAACUGUGAUGUAAGCGAGCUGGUUCUUUCAUU-----UUAAAGAGGUAAUAAAUGAUC
((((((((((.........(((((((...((....)).....)))))))......)))))))))).(((((-----(............)))))).. ( -19.16)
>consensus
GGAAUCAGUUAUCAUCAUUUAUCACAAAAGCAUUCGCAAAAUUGUGAUGUAAGCGAGCUGGUUCUUUUAUU_____UUAAAGAUGUAAUAAAUGAUC
((((((((((.........((((((((..((....))....))))))))......))))))))))................................ (-16.72 = -17.32 +   0.60)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:16 2006