Locus 4460

Sequence ID 3R_DroMel_CAF1
Location 11,810,150 – 11,810,264
Length 114
Max. P 0.806384
window7287

overview

Window 7

Location 11,810,150 – 11,810,264
Length 114
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 71.58
Mean single sequence MFE -21.67
Consensus MFE -6.54
Energy contribution -6.34
Covariance contribution -0.20
Combinations/Pair 1.33
Mean z-score -1.87
Structure conservation index 0.30
SVM decision value 0.63
SVM RNA-class probability 0.806384
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11810150 114 + 27905053
CAAGUCCCGAGUUAAAGUCGGUGGCUGAUAAGCUACGAUUUUCCACUCGCUAUAUAACACUGCGAGAAAAAAUAUACCAGAUCUUAUACAGAUUUCAAAUAU-GAAAUUCUGUAC
.(((((.......(((((((.(((((....))))))))))))...(((((...........))))).............)).))).(((((((((((....)-)))).)))))). ( -27.90)
>DroSec_CAF1 14444 91 + 1
CAAG---------------------UGAUAAGCAACGAUUUU-CACUCGCUAUAUUACACUGCGAGGA-AAAUAGAACAGAUCUUAUACACAUUUCACAUAU-GAAAUUCUUUAU
...(---------------------(((((((.....(((((-(.(((((...........)))))))-)))).........))))).)))((((((....)-)))))....... ( -18.94)
>DroSim_CAF1 14852 92 + 1
CAAG---------------------UGAUAAGCUACGAUUUUCCACUCGCUAUAUUACACUGCGAGGA-AAAUAUAACAGAUCUUAUACACAUUUCACAUAU-GAAAUUCUUUAC
...(---------------------(((((((((...(((((((..((((...........)))))))-)))).....))..))))).)))((((((....)-)))))....... ( -17.50)
>DroEre_CAF1 14734 106 + 1
CAAGUCCCGA------GUCGGAUGCUGAUAAGCCACUAAUU-UCGCUCGCUGCAUUGCACUGUGAGGA-AAUCAUAAUAGGUCUUAUGCACAUUUUUAAUAG-GAACUUAUUAAU
...((((...------...))))(((....))).....(((-((.((((((((...)))..)))))))-)))..(((((((((((((...........))))-).)))))))).. ( -23.40)
>DroYak_CAF1 14737 114 + 1
CAAGACCCGAGCUAAAGUCGGAUGCUGAUAAGCCACUAAUUUUCUCUUGCUUCAUUACACUGUGAGAA-AAACAUAAUAGAUCUUAUGCGCAUUUGAAAUGGGGAACUUAUUAAU
.....(((.(.......((((((((..(((((...(((..(((.(((..(...........)..))).-))).....)))..)))))..))))))))..).)))........... ( -20.60)
>consensus
CAAG_CCCGA______GUCGG__GCUGAUAAGCCACGAUUUUCCACUCGCUAUAUUACACUGCGAGGA_AAAUAUAACAGAUCUUAUACACAUUUCAAAUAU_GAAAUUCUUUAU
..........................(((........((((....(((((...........)))))...)))).......)))................................ ( -6.54 =  -6.34 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:47 2006