Locus 6340

Sequence ID 3L_DroMel_CAF1
Location 16,965,859 – 16,965,974
Length 115
Max. P 0.934209
window10162

overview

Window 2

Location 16,965,859 – 16,965,974
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 93.12
Mean single sequence MFE -28.22
Consensus MFE -26.32
Energy contribution -26.76
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.40
Structure conservation index 0.93
SVM decision value 1.23
SVM RNA-class probability 0.934209
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16965859 115 + 23771897
AAACCAAUUUAUUUUUGCCGGUUCUAUAAUUGGCUGAUCCAAGUAGCGCUGGCAAAUGAGGUAUACGAGUAUAUCUCGGCGGAACAGAACAAAUACAAGUCUAAGGUCUCAAUGA
..(((........(((((((((.((((..((((.....)))))))).)))))))))(((((((((....)))))))))..........................)))........ ( -29.70)
>DroSec_CAF1 5078 115 + 1
AAACCAAUUUAUUUUUGCCGGUUCUAUAAUUGGCUGAUCCAAGUAGCGCUGGCAAAUGAGGUAUACGAGUAUAUCUCGGCGGAACAGAACAAAUACAAGUCUAAGGUCUCAAUGA
..(((........(((((((((.((((..((((.....)))))))).)))))))))(((((((((....)))))))))..........................)))........ ( -29.70)
>DroSim_CAF1 5120 115 + 1
AAACCAAUUUAUUUUUGCCCGUUCUAUAAUUGGCUGAUCCAAGUAGCGCUGGCAAAUGAGGUAUACGAGUAUAACUCGGCGGAACAGAACAAAUACAAGUCUAAGGUCUCAAAGA
..(((........((((((.((.((((..((((.....)))))))).)).))))))....((((.((((.....))))..(........)..))))........)))........ ( -22.80)
>DroEre_CAF1 5194 113 + 1
AAACCAAUUUAUUUUUGCCGGUUCUAUAAUUGGCUGAUCUAAGUAGCGCUGGCAAAUGAGGUAUAU--GUAUAUCUCGGCGGGACAGAACCAAUAAAAGUUUAGGAUCUCAAUGA
...((........(((((((((.((((..((((.....)))))))).))))))))).(((((((..--..))))))))).(((((.((((........))))..).))))..... ( -27.50)
>DroYak_CAF1 5015 113 + 1
AAACCAAUUUAUUUUUGCCGGUUCUAUAAUUGGCUGAUCCAAGUAGCGCUGGCAAAUGAGGUACAU--GUAUAUCUCGGCGGAACAGAACAGAUAAAAGUUUGGGUUCUCAAUGA
...((........(((((((((.((((..((((.....)))))))).))))))))).((((((...--...)))))))).(((((....(((((....))))).)))))...... ( -31.40)
>consensus
AAACCAAUUUAUUUUUGCCGGUUCUAUAAUUGGCUGAUCCAAGUAGCGCUGGCAAAUGAGGUAUACGAGUAUAUCUCGGCGGAACAGAACAAAUACAAGUCUAAGGUCUCAAUGA
...((........(((((((((.((((..((((.....)))))))).)))))))))(((((((((....)))))))))..))................................. (-26.32 = -26.76 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:01 2006