Locus 3078

Sequence ID 2R_DroMel_CAF1
Location 10,546,279 – 10,546,383
Length 104
Max. P 0.520696
window5080

overview

Window 0

Location 10,546,279 – 10,546,383
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.35
Mean single sequence MFE -34.98
Consensus MFE -28.56
Energy contribution -28.60
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.35
Structure conservation index 0.82
SVM decision value -0.03
SVM RNA-class probability 0.520696
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10546279 104 + 20766785
AU------GGAAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCAGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUGGGGCCCGAAUGGGUCC----------GA
.(------(((.((.((..((((((.(.((((((....((((((.....))))))......)))......(((((.....)))))))).).))))))...)).)))))----------). ( -32.30)
>DroSec_CAF1 44147 103 + 1
AU------GGAAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCAGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUGGGGC-CGAAUGGGUCC----------GA
.(------(((..((...(((((((.(.((((((....((((((.....))))))......)))......(((((.....)))))))).).)))))-))..))..)))----------). ( -34.10)
>DroSim_CAF1 35943 103 + 1
AU------GGAAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCAGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUGGGGC-CGAAUGGGUCC----------GA
.(------(((..((...(((((((.(.((((((....((((((.....))))))......)))......(((((.....)))))))).).)))))-))..))..)))----------). ( -34.10)
>DroEre_CAF1 40697 119 + 1
AUGGAAAUGGCAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCGGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUGGGGC-CGAAUGGGUCCGAAUGGGUCCGA
.((((.....(((((.((((..(((((((.(((.(......).)))..))).))))..)))).)......(((((.....)))))...))))((((-(.....))))).......)))). ( -38.70)
>DroYak_CAF1 40632 119 + 1
AUGGAAAUGGAAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCAGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUCGGGC-CAAAUGGGUCCGAAUGCGACCAA
..............(.((((..(((((((.(((.(......).)).).))).))))..)))).)......(((((.....)))))((((.((((((-(.....)))))))...))))... ( -35.70)
>consensus
AU______GGAAUCGGUGUGGCCUCUUGGACGCUCUAAUUUGUGCAGACCGCAGAGUUCAUAGCAAAUUAGUUGAUUAGUUUAACGUCGAUGGGGC_CGAAUGGGUCC__________GA
........((.(((.((.(((((((.(.((((((.....((.(((.....))).)).....)))......(((((.....)))))))).).))))).)).)).)))))............ (-28.56 = -28.60 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:57 2006