Locus 5864

Sequence ID 2R_DroMel_CAF1
Location 18,538,991 – 18,539,099
Length 108
Max. P 0.708230
window9416

overview

Window 6

Location 18,538,991 – 18,539,099
Length 108
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 91.33
Mean single sequence MFE -40.36
Consensus MFE -33.36
Energy contribution -33.76
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.83
SVM decision value 0.37
SVM RNA-class probability 0.708230
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18538991 108 + 20766785
AAGCUACGACUAAAGAUCUGGCUAAGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGC----GUUCGGCAGUCAGCAGGCCAGGCGGCUUAUCUUAAGAGCCGA
.(((((.(((....).))))))).....(((((((....(((..((((..((((((...)))).))----))))..)))......)))))))((((((.......)))))). ( -41.60)
>DroSec_CAF1 19093 108 + 1
AAGCUGCGACUAGAGAUCUGGCUAAGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGC----GUUCGGCAGCCAGCAGGCCAGGCGGCUUAUCUUAAGAGCCGA
.(((((.(((....).))))))).....(((((((....(((..((((..((((((...)))).))----))))..)))......)))))))((((((.......)))))). ( -39.60)
>DroSim_CAF1 19439 108 + 1
AAGCUGCGACUAGAGAUCUGGCUAAGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGC----GUUCGGCAGCCAGCAGGCCAGGCGGCUUAUCUUAAGAGCCGA
.(((((.(((....).))))))).....(((((((....(((..((((..((((((...)))).))----))))..)))......)))))))((((((.......)))))). ( -39.60)
>DroEre_CAF1 20432 108 + 1
AAGCUGCGGCUAAAGAUCUGGCUGAGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGC----GUUCGGCAGCCAGCAGACCAGGCGGCUUAUCUUAAGAGCCGA
...((((((((.....((((((.(((..((((..(.........)..)))).))).))))))..((----.....)))))).))))......((((((.......)))))). ( -41.10)
>DroYak_CAF1 19921 100 + 1
AAGCUGCGGCUA------------AGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGCGAUCGUUCGGCAGCCAGCAGACCAGGCGGCUUAUCUUAAGAGCCGU
...((((((((.------------.......((((...((....))...))))...((((((((....)).)))))))))).)))).....(((((((.......))))))) ( -39.90)
>consensus
AAGCUGCGACUAAAGAUCUGGCUAAGACCCUGGCCGAAUCUGAAGAACAGGCCUCCGCCGGAGAGC____GUUCGGCAGCCAGCAGGCCAGGCGGCUUAUCUUAAGAGCCGA
............................(((((((....(((..((((..((((((...)))).))....))))..)))......)))))))((((((.......)))))). (-33.36 = -33.76 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:44 2006