Locus 2439

Sequence ID X_DroMel_CAF1
Location 6,541,822 – 6,541,938
Length 116
Max. P 0.995641
window3961 window3962

overview

Window 1

Location 6,541,822 – 6,541,938
Length 116
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 88.73
Mean single sequence MFE -26.37
Consensus MFE -24.29
Energy contribution -24.07
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.33
Structure conservation index 0.92
SVM decision value 1.43
SVM RNA-class probability 0.953162
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6541822 116 + 22224390
AUUU-UUGAAUGUUAUAGCAAGUUUCGCCCGAGGAUUUCCUCGAAAGGCACUUGUUGCCUCGUCCAUCCGCGAUGCUCAGUAAUUAUUUUAAUAUUUAGUUUUUCGGGUUUCUUUUU
....-((((((((((.(((((((...((((((((....)))))...))))))))))((.((((......)))).)).............)))))))))).................. ( -28.30)
>DroEre_CAF1 14731 113 + 1
AUUUUUUGAAUGUUAUAGCAAGUUUCGCCCGAGGAUUUCCUCGAAAGGCACUUGUUGCCUCGUCCAUCCGCGAUGCUCAAUAAUUAUUUUUAU----AGUUUUUCGGGUUUCUUCUU
......((.(((...((((((((...((((((((....)))))...)))))))))))...))).)).....((.((((((.((((((....))----)))).)).)))).))..... ( -26.50)
>DroYak_CAF1 14295 108 + 1
AUUU-UUGAAUGUUAUAGCAAGUUUCGCCCGAGGACUUCCUCGAAAGGCACUUGUUGCCUCGUCCAUUCGCGAUGCUCAAUAAUUUUUUUUCU----UUUUUUUUGGUUUU----UU
....-((((.......(((((((...((((((((....)))))...))))))))))((.((((......)))).)))))).............----..............----.. ( -24.30)
>consensus
AUUU_UUGAAUGUUAUAGCAAGUUUCGCCCGAGGAUUUCCUCGAAAGGCACUUGUUGCCUCGUCCAUCCGCGAUGCUCAAUAAUUAUUUUUAU____AGUUUUUCGGGUUUCUU_UU
.....((((.......(((((((...((((((((....)))))...))))))))))((.((((......)))).))))))..................................... (-24.29 = -24.07 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,541,822 – 6,541,938
Length 116
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 88.73
Mean single sequence MFE -24.40
Consensus MFE -24.40
Energy contribution -24.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 1.00
SVM decision value 2.60
SVM RNA-class probability 0.995641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6541822 116 - 22224390
AAAAAGAAACCCGAAAAACUAAAUAUUAAAAUAAUUACUGAGCAUCGCGGAUGGACGAGGCAACAAGUGCCUUUCGAGGAAAUCCUCGGGCGAAACUUGCUAUAACAUUCAA-AAAU
........................................((((((((........((((((.....))))))((((((....))))))))))....))))...........-.... ( -24.40)
>DroEre_CAF1 14731 113 - 1
AAGAAGAAACCCGAAAAACU----AUAAAAAUAAUUAUUGAGCAUCGCGGAUGGACGAGGCAACAAGUGCCUUUCGAGGAAAUCCUCGGGCGAAACUUGCUAUAACAUUCAAAAAAU
....................----................((((((((........((((((.....))))))((((((....))))))))))....))))................ ( -24.40)
>DroYak_CAF1 14295 108 - 1
AA----AAAACCAAAAAAAA----AGAAAAAAAAUUAUUGAGCAUCGCGAAUGGACGAGGCAACAAGUGCCUUUCGAGGAAGUCCUCGGGCGAAACUUGCUAUAACAUUCAA-AAAU
..----..............----................((((((((........((((((.....))))))((((((....))))))))))....))))...........-.... ( -24.40)
>consensus
AA_AAGAAACCCGAAAAACU____AUAAAAAUAAUUAUUGAGCAUCGCGGAUGGACGAGGCAACAAGUGCCUUUCGAGGAAAUCCUCGGGCGAAACUUGCUAUAACAUUCAA_AAAU
........................................((((((((........((((((.....))))))((((((....))))))))))....))))................ (-24.40 = -24.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:26 2006