Locus 4968

Sequence ID X_DroMel_CAF1
Location 12,969,401 – 12,969,507
Length 106
Max. P 0.953238
window8100 window8101

overview

Window 0

Location 12,969,401 – 12,969,507
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 77.07
Mean single sequence MFE -30.71
Consensus MFE -19.74
Energy contribution -19.97
Covariance contribution 0.22
Combinations/Pair 1.07
Mean z-score -2.07
Structure conservation index 0.64
SVM decision value 1.43
SVM RNA-class probability 0.953238
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12969401 106 + 22224390
GACGUGAGGCGUCUCUGGCUGGGCUGCCACGCCCCCUUGGCCACCAUACACACCUGCCCCCCCCAAAAAAUUACUUGCCUCCCCUUAAAAAUAUGGGGGCAUUAAU
((((.....))))..(((((((((......))))....)))))...........(((((((.................................)))))))..... ( -29.61)
>DroSim_CAF1 3700 93 + 1
GACGUGAGGCGUCUCUGGCUGGGCUGCCACGCCCC---------CAUACACACUUGCCCCC----AAAAAUUACUUGCCUCCCCUUAAAAAUAUGGGGGCAUUAAU
((((.....))))..(((..((((......)))))---------))........(((((((----(...........................))))))))..... ( -27.43)
>DroEre_CAF1 3530 86 + 1
GACGUGAGGCGUCUGUGGCUGGGCUGCCACGCCCCUUUGGCCACCAUACAUUUGUGCC-----------------UGC---CCCCUAAAAAUAUGGGGGCAUUAAU
((((.....)))).((((((((((......))))....))))))..............-----------------(((---((((.........)))))))..... ( -35.10)
>consensus
GACGUGAGGCGUCUCUGGCUGGGCUGCCACGCCCC_UUGGCCACCAUACACACCUGCCCCC____AAAAAUUACUUGCCUCCCCUUAAAAAUAUGGGGGCAUUAAU
((((.....))))..((((......)))).((((((..........................................................))))))...... (-19.74 = -19.97 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 12,969,401 – 12,969,507
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 77.07
Mean single sequence MFE -34.50
Consensus MFE -23.24
Energy contribution -24.24
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.67
SVM decision value 0.37
SVM RNA-class probability 0.709950
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12969401 106 - 22224390
AUUAAUGCCCCCAUAUUUUUAAGGGGAGGCAAGUAAUUUUUUGGGGGGGGCAGGUGUGUAUGGUGGCCAAGGGGGCGUGGCAGCCCAGCCAGAGACGCCUCACGUC
.....(((((((...(((((....)))))((((......))))..)))))))(((((.(.((((..(....)((((......)))).)))).).)))))....... ( -36.00)
>DroSim_CAF1 3700 93 - 1
AUUAAUGCCCCCAUAUUUUUAAGGGGAGGCAAGUAAUUUUU----GGGGGCAAGUGUGUAUG---------GGGGCGUGGCAGCCCAGCCAGAGACGCCUCACGUC
.....((((((((.....(((...(....)...)))....)----))))))).......(((---------((((((((((......)))....))))))).))). ( -31.70)
>DroEre_CAF1 3530 86 - 1
AUUAAUGCCCCCAUAUUUUUAGGGG---GCA-----------------GGCACAAAUGUAUGGUGGCCAAAGGGGCGUGGCAGCCCAGCCACAGACGCCUCACGUC
.....(((((((.........))))---)))-----------------.......((((..(((((((.....)))(((((......)))))...))))..)))). ( -35.80)
>consensus
AUUAAUGCCCCCAUAUUUUUAAGGGGAGGCAAGUAAUUUUU____GGGGGCAAGUGUGUAUGGUGGCCAA_GGGGCGUGGCAGCCCAGCCAGAGACGCCUCACGUC
.....(((((((.................................)))))))...................((((((((((......)))....)))))))..... (-23.24 = -24.24 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:13 2006