Locus 280

Sequence ID 2R_DroMel_CAF1
Location 1,685,157 – 1,685,264
Length 107
Max. P 0.694043
window591

overview

Window 1

Location 1,685,157 – 1,685,264
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.65
Mean single sequence MFE -27.35
Consensus MFE -18.65
Energy contribution -19.03
Covariance contribution 0.38
Combinations/Pair 1.12
Mean z-score -1.78
Structure conservation index 0.68
SVM decision value 0.34
SVM RNA-class probability 0.694043
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1685157 107 + 20766785
CCCCUCUUCCAGUAGAUAGUCACGCAGCA--------UAUAUGUAUGCACCGAAGACUCCUCGGC-----AAUGGGAGACCCGCCACCCGCUGGAAAUCGUUCAACUUAAUUUAUGCUUU
......(((((((.((.((((.((..(((--------((....)))))..))..))))..))(((-----...((....)).)))....)))))))........................ ( -27.30)
>DroSec_CAF1 70563 109 + 1
CCCCUCUUCCAGCAGAAAGUCACGCAGCAAACAUACAUAUAUG------CCGAAGACUCCUCGGC-----AAUGGGUGACCCGCCACCCGCUGGAAAUCGUUCAACUUAAUUUAUGCUUU
......(((((((............................((------((((.......)))))-----)..(((((......))))))))))))........................ ( -29.50)
>DroSim_CAF1 67727 115 + 1
CCCCUCUUCCAGCAGAUAGUCACGCAGCAAACAUACAUAUAUGUAUGCACCGAAGACUCCUCGGC-----AAUGGGUGACCCGCCACCCGCUGGAAAUCGUUCAACUUAAUUUAUGCUUU
......(((((((.((.((((.((..(((.(((((....))))).)))..))..))))..))(((-----...((....)).)))....)))))))........................ ( -31.80)
>DroEre_CAF1 74861 108 + 1
CCCCUCUUACAGCGGAAAGUCACGCAGCA--------UA----UAUUCACCAAAGACUCCUCGGCAAGCCAAUGGGUGCCCCUCCAUCCGCUGGAAAUCGUUCAACUUAAUUUAUGCUUU
...........(((........)))((((--------((----.(((.....(((......(((....(((.((((((......)))))).)))...))).....)))))).)))))).. ( -20.80)
>consensus
CCCCUCUUCCAGCAGAAAGUCACGCAGCA________UAUAUGUAUGCACCGAAGACUCCUCGGC_____AAUGGGUGACCCGCCACCCGCUGGAAAUCGUUCAACUUAAUUUAUGCUUU
......(((((((....................................((((.......)))).........(((((......))))))))))))........................ (-18.65 = -19.03 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:26 2006