Locus 1096

Sequence ID 3R_DroMel_CAF1
Location 3,310,846 – 3,310,963
Length 117
Max. P 0.507899
window1792

overview

Window 2

Location 3,310,846 – 3,310,963
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.04
Mean single sequence MFE -22.06
Consensus MFE -17.92
Energy contribution -17.72
Covariance contribution -0.20
Combinations/Pair 1.06
Mean z-score -1.37
Structure conservation index 0.81
SVM decision value -0.05
SVM RNA-class probability 0.507899
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3310846 117 + 27905053
AUCU-CAACUGGCAACAAAAAACA--AACGUCAGGCUUUGAGUGCAAAAAUAUGUAGCAUCCACAACAAAUUAAAUUAAGUGUCUAUUUAGAGAAAAUGCAGUUAAAAGCCGUGGUCAGA
....-...(((((.((.....((.--...))..((((((((.((((....((.(((((((...................))).)))).)).......)))).)).)))))))).))))). ( -21.41)
>DroSec_CAF1 15023 119 + 1
AUCUGCAACUGGCAACAAAAAAUAAAAACGUCAGGCUUUGAGUGCAAAAAUAUGUAGCAUCCA-AACAAAUUAAAUUAAGUGUCUAUUUAGAGAAAAUGCAGUUAAAAGCCGUGGUCAGA
.(((((.((((....))................((((((((.((((....((.(((((((...-...............))).)))).)).......)))).)).)))))))).).)))) ( -20.97)
>DroSim_CAF1 19267 120 + 1
AUCUGCAACUGGCAACAAAAAAUAAAAACGUCAGGCUUUGAGUGCAAAAAUGUGUAGCAUCCACAACAAAUUAAAUUAAGUGUCUAUUUAGAGAAAAUGCAGUUAAAAGCCGUGGUCAGA
.(((((.((((....))................((((((((.((((....((((.......))))...............(.(((....))).)...)))).)).)))))))).).)))) ( -23.20)
>DroEre_CAF1 9609 117 + 1
AUCU-CAACUGGCAACAAAAAACA--AACGUCAGGCUUUGAGUGCAAAAAUAUGUAGCAUCCAAAACAAAUUAAAUUGAGUGUCUAUUUAGAGAAAAUGCAUUUAAAAGCCGUGGUCAGG
....-...(((((.((.....((.--...))..(((((((((((((....((.((((((..(((...........)))..)).)))).)).......))))))).)))))))).))))). ( -26.10)
>DroYak_CAF1 25274 117 + 1
AUCU-CAACUGGCAACAAAAAACA--AACGUCAGACUUUGAGUGCAAAAAUAUGUAGAAUCCAAAACGAAUUAAAUUGAGUGUCUAUUUAGAGAAAAUGCAUUUAAAUGCCGUGGUCAGU
....-..((((((...........--.(((.((...((((((((((....((.(((((..((((...........))).)..))))).)).......)))))))))))).))).)))))) ( -18.62)
>consensus
AUCU_CAACUGGCAACAAAAAACA__AACGUCAGGCUUUGAGUGCAAAAAUAUGUAGCAUCCAAAACAAAUUAAAUUAAGUGUCUAUUUAGAGAAAAUGCAGUUAAAAGCCGUGGUCAGA
........(((((.((.....((......))..((((((((.((((..(((.(((..........))).)))........(.(((....))).)...)))).))))).))))).))))). (-17.92 = -17.72 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:45 2006