Locus 4651

Sequence ID 3R_DroMel_CAF1
Location 12,248,466 – 12,248,570
Length 104
Max. P 0.958171
window7641

overview

Window 1

Location 12,248,466 – 12,248,570
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 82.24
Mean single sequence MFE -26.24
Consensus MFE -12.38
Energy contribution -13.26
Covariance contribution 0.88
Combinations/Pair 1.11
Mean z-score -3.17
Structure conservation index 0.47
SVM decision value 1.49
SVM RNA-class probability 0.958171
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12248466 104 + 27905053
AAAAGGGGG----GAUCCUACCCCCC--ACCGCUACUUCUCAAGCUCCCCCUCCCCCCCUGGUGACCCCUUUACAUUGUAACGCAAUGACAAUGGCAACCUUCACACAGA
....(((((----(......))))))--...(((........))).............(((((((........(((((.....))))).....(....)..)))).))). ( -27.90)
>DroSec_CAF1 62317 96 + 1
AAAAGGGGG----GAUCCUAACCCCC---CAUCUACUUCUCAAACUCCC-------CCCUGGUGACCCCUUUACAUUGCAACGCAAUGACAAUGGCAACCUUCACACAGA
....(((((----(.......)))))---)...................-------..(((((((........((((((...)))))).....(....)..)))).))). ( -26.60)
>DroSim_CAF1 62546 100 + 1
AAAAGGGGG----GAUCCUAACCCCCACACCACUACUUCUCAAACUCCC------CCCCUGGUGACCCCUUUACAUUGCAACGCAAUGACAAUGGCAACCUUCACACAGA
....(((((----((..............................))))------)))(((((((........((((((...)))))).....(....)..)))).))). ( -25.51)
>DroEre_CAF1 65845 97 + 1
AAAAGGGGAGGGCGGUUCGAGCCCCC---CCGCUACUUCCCAAGCC----------CCCCGAUGACGCCUUUACAUCGCAACGCAAUGACAAUGGCAACCUUCACACAGA
....((((.((((.......))))))---))((((........((.----------...(((((.........)))))....))........)))).............. ( -26.19)
>DroYak_CAF1 64089 91 + 1
AAAAGGGG-----GGUCCGAAUCCCC---CCGCCACUUCCCAAGCC-----------CCCGAUGAGGCCUUUACAUCGCAACGCAAUGACAAUGGCAACCUUCACACAGA
....((((-----((.......))))---))((((........(((-----------........))).....(((.((...)).)))....)))).............. ( -25.00)
>consensus
AAAAGGGGG____GAUCCUAACCCCC___CCGCUACUUCUCAAGCUCCC_______CCCUGGUGACCCCUUUACAUUGCAACGCAAUGACAAUGGCAACCUUCACACAGA
....((((.............)))).................................(((((((........((((((...)))))).....(....)..)))).))). (-12.38 = -13.26 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:35 2006