Locus 3788

Sequence ID X_DroMel_CAF1
Location 10,027,336 – 10,027,456
Length 120
Max. P 0.994811
window6222 window6223

overview

Window 2

Location 10,027,336 – 10,027,456
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.78
Mean single sequence MFE -23.23
Consensus MFE -17.48
Energy contribution -17.59
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.37
Structure conservation index 0.75
SVM decision value 1.17
SVM RNA-class probability 0.926126
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10027336 120 + 22224390
AGCAUAAAUGGUAUUGAGUUAAUGAAUAACUCAAUUUUGGCCUAUUGUUACCCACAACAUAUUGUGCAACAUAUUACUCAUACGCACUGUUGCACCAUAUUGUAUUUAGCGACAACAAAU
.((.(((((((((((((((((.....)))))))))....)))..............((((((.((((((((................)))))))).))).)))))))))).......... ( -25.39)
>DroSim_CAF1 4656 120 + 1
AGCAUAUAUGAUAUUGAGUUAAUGAAUAACUCAAUUUUGGCUUAUUGCUAUCCACAACAUACUGUGCAACAUAUUACUCAUACGCCCUGUUGCACCAUAUUGUAUUCAGCGACAACAAAU
.((..(((..(((((((((((.....))))))))...((((.....)))).............((((((((................))))))))..)))..)))...)).......... ( -24.99)
>DroYak_CAF1 31866 107 + 1
-------------UUGAGUUAAUAAAUAACUCAAUUUUGCCUCAUUGUUAUCCGAAACAUGCAUUGCAACAUAUUACGCAUACGCCCUGUUGCACCAAAUUGUAUACAGCGACAACAAAU
-------------((((((((.....))))))))..........(((((...((....(((((.(((((((......((....))..)))))))......)))))....))..))))).. ( -19.30)
>consensus
AGCAUA_AUG_UAUUGAGUUAAUGAAUAACUCAAUUUUGGCUUAUUGUUAUCCACAACAUACUGUGCAACAUAUUACUCAUACGCCCUGUUGCACCAUAUUGUAUUCAGCGACAACAAAU
.............((((((((.....)))))))).((((.....(((((.......(((....((((((((................)))))))).....)))....)))))...)))). (-17.48 = -17.59 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,027,336 – 10,027,456
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -34.93
Consensus MFE -29.46
Energy contribution -29.13
Covariance contribution -0.32
Combinations/Pair 1.17
Mean z-score -3.90
Structure conservation index 0.84
SVM decision value 2.51
SVM RNA-class probability 0.994811
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10027336 120 - 22224390
AUUUGUUGUCGCUAAAUACAAUAUGGUGCAACAGUGCGUAUGAGUAAUAUGUUGCACAAUAUGUUGUGGGUAACAAUAGGCCAAAAUUGAGUUAUUCAUUAACUCAAUACCAUUUAUGCU
.((((((((..((...(((((((((((((((((.(((......)))...))))))))..)))))))))))..)))))))).....(((((((((.....)))))))))............ ( -38.20)
>DroSim_CAF1 4656 120 - 1
AUUUGUUGUCGCUGAAUACAAUAUGGUGCAACAGGGCGUAUGAGUAAUAUGUUGCACAGUAUGUUGUGGAUAGCAAUAAGCCAAAAUUGAGUUAUUCAUUAACUCAAUAUCAUAUAUGCU
.((((((((.((((..(((((((((((((((((..((......))....))))))))..)))))))))..)))).))))..))))(((((((((.....)))))))))............ ( -36.90)
>DroYak_CAF1 31866 107 - 1
AUUUGUUGUCGCUGUAUACAAUUUGGUGCAACAGGGCGUAUGCGUAAUAUGUUGCAAUGCAUGUUUCGGAUAACAAUGAGGCAAAAUUGAGUUAUUUAUUAACUCAA-------------
..((((((((...((((((..((((......))))..))))))(.(((((((......))))))).).))))))))..........((((((((.....))))))))------------- ( -29.70)
>consensus
AUUUGUUGUCGCUGAAUACAAUAUGGUGCAACAGGGCGUAUGAGUAAUAUGUUGCACAGUAUGUUGUGGAUAACAAUAAGCCAAAAUUGAGUUAUUCAUUAACUCAAUA_CAU_UAUGCU
.((((((((..(((...(((.(((.((((((((..((......))....)))))))).))))))..)))...)))))))).....(((((((((.....)))))))))............ (-29.46 = -29.13 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:32 2006