Locus 3804

Sequence ID	3R_DroMel_CAF1
Location	10,327,941 – 10,328,033
Length	92
Max. P	0.896823

overview

Window 9

Location	10,327,941 – 10,328,033
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	75.76
Mean single sequence MFE	-21.76
Consensus MFE	-11.58
Energy contribution	-13.34
Covariance contribution	1.76
Combinations/Pair	1.15
Mean z-score	-2.02
Structure conservation index	0.53
SVM decision value	0.99
SVM RNA-class probability	0.896823
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10327941 92 - 27905053
AUAAGACAAUUAUACCCUUAUUCGCGGUAUUUUUGUCCGGGGAGUCGUGCUCUUUCCAAAUGCCUGUAUACAUUGCAUUUCAUUGGCACUCA
....(((((..((((((......).)))))..))))).((..((.......))..))...((((((((.....)))).......)))).... ( -22.81)
>DroSec_CAF1 184745 92 - 1
AUAAAACAAUUAUACCCUUAUUAAGGGUAUUUAUGCCCGGGGAGUUGUGGGCUUUCCAAAUGCCUGGAUACAUCGCAUUUCAUUGCGACUCA
......((...(((((((.....)))))))...)).(((((.(....(((.....)))..).))))).....(((((......))))).... ( -25.90)
>DroSim_CAF1 184919 92 - 1
AUAAAACAAUUAUACCCUUAUUAAGGGUAUUUAUGCCCGGGGAGUCGUGGGCUUUCCAAAUGCCUGGAUACAUCGCAUUUCAUUGCGACUCA
...........(((((((.....)))))))....(((((.(....).)))))..((((......))))....(((((......))))).... ( -26.50)
>DroEre_CAF1 185162 69 - 1
-----------------------AGGGUAUUUAUGCCCGGGAAGUUAUGCGCUUUCCAAAUGCCUGGAUACAUUGCAUUUCAUUGCGACUCA
-----------------------.(((((....)))))(((((((.....)))))))((((((.((....))..))))))............ ( -19.00)
>DroYak_CAF1 194993 84 - 1
GCUAGACAAUUAGACCCUUAUUAAGGGUAUUUAUACC--------UAUUUACUUUCCAAAUGCUUGGAUACUUUGCAUUUCAUUGCGACUCA
..(((........(((((.....)))))........)--------)).......(((((....)))))....(((((......))))).... ( -14.59)
>consensus
AUAAAACAAUUAUACCCUUAUUAAGGGUAUUUAUGCCCGGGGAGUUGUGCGCUUUCCAAAUGCCUGGAUACAUUGCAUUUCAUUGCGACUCA
........................((((((((......(((((((.....))))))))))))))).......(((((......))))).... (-11.58 = -13.34 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:31 2006