Locus 4675

Sequence ID 3L_DroMel_CAF1
Location 13,216,463 – 13,216,573
Length 110
Max. P 0.518263
window7362

overview

Window 2

Location 13,216,463 – 13,216,573
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 92.58
Mean single sequence MFE -26.25
Consensus MFE -23.26
Energy contribution -22.82
Covariance contribution -0.44
Combinations/Pair 1.14
Mean z-score -1.35
Structure conservation index 0.89
SVM decision value -0.03
SVM RNA-class probability 0.518263
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13216463 110 + 23771897
AAACGUCAAACCUCUUGGGUCAAUUCGACACUUGAUGACAACGCCCGUCGCAGGACCAGCUCCUUGAGAUCCCUUAACCGGCCACGCCCUUCGACCCUACGCCCCCUUUC
...((((((.((....))(((.....)))..)))))).........((((.(((.(..(((..(((((....)))))..)))...).))).))))............... ( -23.20)
>DroSec_CAF1 9832 110 + 1
GAACGUCAAACCUCUUGGGUCAUUUCGACACUUGACGACAACGCCUGCCGCAGGACCAGCUCCUUGAGAUCCCUUAACCGGCCACGUCCUUCGGCCCUACGCCCCCUUUC
...((((((.((....))(((.....)))..)))))).........((((.(((((..(((..(((((....)))))..)))...))))).))))............... ( -31.80)
>DroSim_CAF1 14913 110 + 1
AAACGUCAAACCUCUUGGGUCAUUUCGACACUUGACGACAACGCCUGUCGCAGGACCAGCUCCUUGAGAUCCCUUAACCGGCCACGCCCUUCGGCCCUACGCCCCUCUUU
...(((.....(((..(((((.....))).((((.(((((.....))))))))).......))..)))...........((((.........))))..)))......... ( -25.50)
>DroYak_CAF1 9722 110 + 1
AAACGUCAAACCUCUUGGGUCAUUUCGACACUUGACGACAACGCCCUUCACAGGACCUGCUCCUUCAGAUCCCUUAACCGGCCACGCCCUUUGGCCCAACGCCCCCUUUC
...((((((.((....))(((.....)))..)))))).....((........(((.(((......))).))).......(((((.......)))))....))........ ( -24.50)
>consensus
AAACGUCAAACCUCUUGGGUCAUUUCGACACUUGACGACAACGCCCGUCGCAGGACCAGCUCCUUGAGAUCCCUUAACCGGCCACGCCCUUCGGCCCUACGCCCCCUUUC
...((((((.((....))(((.....)))..)))))).....((..((((.(((.(..(((..(((((....)))))..)))...).))).)))).....))........ (-23.26 = -22.82 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:25 2006