Locus 1593

Sequence ID X_DroMel_CAF1
Location 4,582,671 – 4,582,784
Length 113
Max. P 0.857637
window2610 window2611

overview

Window 0

Location 4,582,671 – 4,582,784
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 94.05
Mean single sequence MFE -24.67
Consensus MFE -22.79
Energy contribution -22.47
Covariance contribution -0.33
Combinations/Pair 1.10
Mean z-score -1.71
Structure conservation index 0.92
SVM decision value 0.22
SVM RNA-class probability 0.637901
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4582671 113 + 22224390
UUAAUUGUUGAGUUUUCGGUAUUUUCCUUGCCACACACAUCGGAUUAAAUGCGUUGUGUGUGUGUGUGUACACUCUGUGCCUAAUUUUCGUUGGCUACUUUUUAAGCUUUUCC
.........(((..((.(((((......((((((((((((..(((.......)))..))))))))).)))......))))).))..)))...((((........))))..... ( -24.90)
>DroSec_CAF1 7130 110 + 1
UUAAUUGUUGAGUUUUCGGCAUUUUCCUUGCCACACACAUCGGAUUAAAUGCGUUGUGUGUGUA---GUACACUCUGUGUCUAAUUUUCGUUGGCUACUUUUUGAGCUUUUUC
....(((..((((..(((((...........((((((((.((.((...)).)).))))))))((---(.((((...)))))))......)))))..))))..)))........ ( -24.60)
>DroSim_CAF1 7903 110 + 1
UUAAUUGUUGAGUUUUCGGUAUUUUCCUUGCCACACACAUCGGAUUAAAUGCGUUGUGUGUGUA---GUUCACUCUGUGCCUAAUUUUCAUUGGCUACUUUUUGAGCUUUUUC
.................((((.......))))(((((((.((.((...)).)).)))))))..(---(((((....(((((...........))).))....))))))..... ( -24.50)
>consensus
UUAAUUGUUGAGUUUUCGGUAUUUUCCUUGCCACACACAUCGGAUUAAAUGCGUUGUGUGUGUA___GUACACUCUGUGCCUAAUUUUCGUUGGCUACUUUUUGAGCUUUUUC
........((((..((.(((((......(((((((((((.((.((...)).)).)))))))).....)))......))))).))..))))..((((........))))..... (-22.79 = -22.47 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,582,671 – 4,582,784
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 94.05
Mean single sequence MFE -22.03
Consensus MFE -19.30
Energy contribution -19.63
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.88
SVM decision value 0.81
SVM RNA-class probability 0.857637
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4582671 113 - 22224390
GGAAAAGCUUAAAAAGUAGCCAACGAAAAUUAGGCACAGAGUGUACACACACACACACAACGCAUUUAAUCCGAUGUGUGUGGCAAGGAAAAUACCGAAAACUCAACAAUUAA
......((((((...((.....)).....))))))...((((.........((((((((.((.........)).))))))))....((......))....))))......... ( -22.20)
>DroSec_CAF1 7130 110 - 1
GAAAAAGCUCAAAAAGUAGCCAACGAAAAUUAGACACAGAGUGUAC---UACACACACAACGCAUUUAAUCCGAUGUGUGUGGCAAGGAAAAUGCCGAAAACUCAACAAUUAA
......((((.....).)))..................((((....---...(((((((.((.........)).)))))))((((.......))))....))))......... ( -19.40)
>DroSim_CAF1 7903 110 - 1
GAAAAAGCUCAAAAAGUAGCCAAUGAAAAUUAGGCACAGAGUGAAC---UACACACACAACGCAUUUAAUCCGAUGUGUGUGGCAAGGAAAAUACCGAAAACUCAACAAUUAA
...............((.((((((....))).))))).((((....---..((((((((.((.........)).))))))))....((......))....))))......... ( -24.50)
>consensus
GAAAAAGCUCAAAAAGUAGCCAACGAAAAUUAGGCACAGAGUGUAC___UACACACACAACGCAUUUAAUCCGAUGUGUGUGGCAAGGAAAAUACCGAAAACUCAACAAUUAA
...............((.(((...........))))).((((.........((((((((.((.........)).))))))))....((......))....))))......... (-19.30 = -19.63 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:14 2006