Locus 4728

Sequence ID X_DroMel_CAF1
Location 12,291,870 – 12,291,965
Length 95
Max. P 0.919546
window7753

overview

Window 3

Location 12,291,870 – 12,291,965
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.86
Mean single sequence MFE -26.93
Consensus MFE -18.32
Energy contribution -19.72
Covariance contribution 1.39
Combinations/Pair 1.24
Mean z-score -3.06
Structure conservation index 0.68
SVM decision value 1.13
SVM RNA-class probability 0.919546
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12291870 95 + 22224390
GGCAAAUGCAAAUGAGUCCGGUGGAUAAAAAAAAAAAAUGGGAAACAUAGCAGUUCCAUAAUUGGGACC-AGCCGCCGA-------AAUUAAUCCGCCGGGCA
.((....))......(((((((((((..............(....)...((.((((((....)))))).-.))......-------.....))))))))))). ( -32.50)
>DroSec_CAF1 1451 89 + 1
GGUAAAUGCAAAUGAGUCCGGUGGA-----AAA-AAAAUGGGAAACAUAGCAGUUCCAUAAUUGGGACC-AGCCGCCGA-------AAUUAAUCCGCCGGGCA
...............((((((((((-----...-......(....)...((.((((((....)))))).-.))......-------......)))))))))). ( -30.20)
>DroSim_CAF1 1761 90 + 1
GGCAAAUGCAAAUGAGUCCGGUGGA-----AAAAAAAAUGGGAAACAUAGCAGUUCCAUAAUUGGGACC-AGCCGCCGA-------AAUUAAUCCGCCGGGCA
.((....))......((((((((((-----..........(....)...((.((((((....)))))).-.))......-------......)))))))))). ( -31.50)
>DroEre_CAF1 1560 88 + 1
GGCAAAUGCAAAUGAGUGCGGUGGA-----AA--GAAAUGGGAAAAAUAGCAGUUCCAUAAUUGGGACC-AGCCGCCGA-------AAUUAAUCCGUCGGGCA
.((....))......((.((..(((-----..--....(.((.......((.((((((....)))))).-.))..)).)-------......)))..)).)). ( -20.80)
>DroYak_CAF1 1394 88 + 1
GGCAAAUGCAAAUGAGUCCGGUGGA-----AA--AAAAUGGGAAAAAUAGCAGUUCCAUAAUUGGAACC-GGCCGCCGA-------AAUUAAUCCGCCGGGCA
.((....))......((((((((((-----..--..................((((((....))))))(-((...))).-------......)))))))))). ( -30.60)
>DroPer_CAF1 1478 89 + 1
GGGAAAUGCAAAUGAGUUCAACCCA-----------AAAGGCAAG---CGCAUUUCCAUAAUUAGGCCAAAACCAACGACUCUGUUUAUUGAUCCGCCAGGCA
.((((((((...((....))..((.-----------...))....---.))))))))........(((......((((....))))...((......))))). ( -16.00)
>consensus
GGCAAAUGCAAAUGAGUCCGGUGGA_____AA__AAAAUGGGAAACAUAGCAGUUCCAUAAUUGGGACC_AGCCGCCGA_______AAUUAAUCCGCCGGGCA
.((....))......((((((((((.............(.((..........((((((....)))))).......)).).............)))))))))). (-18.32 = -19.72 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:55 2006