Locus 1308

Sequence ID X_DroMel_CAF1
Location 3,896,661 – 3,896,765
Length 104
Max. P 0.604103
window2090

overview

Window 0

Location 3,896,661 – 3,896,765
Length 104
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -25.60
Consensus MFE -17.20
Energy contribution -16.68
Covariance contribution -0.52
Combinations/Pair 1.26
Mean z-score -1.60
Structure conservation index 0.67
SVM decision value 0.14
SVM RNA-class probability 0.604103
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3896661 104 + 22224390
GGAGGCGGUUUCGGGGCAAAACACUUUGCCAAAUUGGUAAAGAAAUGCAAAAGUACAAUGUGCCCUUUAU-CGAAGUACCUAAUACCCUGUAAUAUUGCUGUGUG----
((...((((...((((((.....(((((((.....)))))))...(((....))).....))))))..))-)).....))..((((...(((....))).)))).---- ( -24.20)
>DroSec_CAF1 14016 99 + 1
GGAGGCGGUUUCGGGGCAAAACACUUUGCCAAAUUGGCAAAGAAAUGCAAAAGUAG------UACUUAAUACGGAGUACUUAAUACCCUGUAAUAUUGUUGUGUA----
...((((((..(((((.......(((((((.....)))))))............((------(((((......))))))).....)))))....)))))).....---- ( -27.60)
>DroSim_CAF1 11143 99 + 1
GGAGGCGGUUUCGGGGCAAAACACUUUGCCAAAUUGGCAAAGAAAUGCAAAAGUAG------UACUUAAUACGGAGUACUUAAUACCCUGUAAUAUUGAUGUUUA----
.....((((..(((((.......(((((((.....)))))))............((------(((((......))))))).....)))))....)))).......---- ( -25.40)
>DroEre_CAF1 16080 94 + 1
GGAGGCGGUUUUGGGGCAAAACACUUUGCCAAAUUGGCAAAGAAAUGCAAAAGUCAUGUGCG-GCAUUAU-CGAAGCACCUUAUACCUUGUAAUUU-------------
......(((...(((((......(((((((.....))))))).(((((....((.....)).-)))))..-....)).)))...))).........------------- ( -24.90)
>DroYak_CAF1 16500 107 + 1
GAAGGCGGUUUCGGGGCAAAACACUUUGCCAAAUUGGCAAAGAAAUGUAAAAGUCCAGUAUG-GCAUUAU-CGAAGCACGUUAUACCUUGUAAUAUUUUUAUAUGUUCA
(((((((((((((((((...((((((((((.....)))))))...)))....)))).(....-.).....-)))))).))))......(((((.....)))))..))). ( -25.90)
>consensus
GGAGGCGGUUUCGGGGCAAAACACUUUGCCAAAUUGGCAAAGAAAUGCAAAAGUAC__U__G_ACUUUAU_CGAAGUACCUAAUACCCUGUAAUAUUGUUGUGUA____
.......(((.(((((.......(((((((.....))))))).....................((((......))))........))))).)))............... (-17.20 = -16.68 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:13 2006