Locus 4668

Sequence ID 3L_DroMel_CAF1
Location 13,212,992 – 13,213,098
Length 106
Max. P 0.500000
window7345

overview

Window 5

Location 13,212,992 – 13,213,098
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.75
Mean single sequence MFE -27.68
Consensus MFE -17.36
Energy contribution -17.84
Covariance contribution 0.48
Combinations/Pair 1.08
Mean z-score -1.95
Structure conservation index 0.63
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13212992 106 + 23771897
GAAACUAGUUUACGCAACAUGUGGCAAUUUUGCAUGCCACAAGAGGCCACAGAGGACGUGCCACACAGC----GUACAGCGCACUGG----------GGAAAAGAAACCGAAACAAAAAU
....(((((..........(((((((.(((((...(((......)))..)))))....)))))))..((----(.....))))))))----------((........))........... ( -27.40)
>DroSec_CAF1 6343 106 + 1
GAAACUAGUUUACGCAACAUGUGGCAAUUUUGCAUGCCACAAGAGGCCACAGAGGACGUGCCACACAGC----GCACAGCGCACUGG----------GGAAAAGAAACCGAAACAAAAAU
....(((((..........(((((((.(((((...(((......)))..)))))....)))))))..((----((...)))))))))----------((........))........... ( -28.50)
>DroSim_CAF1 11422 99 + 1
AAAACUAGUUUACGCAACAUGUGGCAAUUUUGCAUGCCACAAGAGGCCACAGAGGACGUGCCACACAG-----------CGCACUGG----------GGAAAAGAAACCGAAACAAAAAU
....(((((...(((....(((((((.(((((...(((......)))..)))))....)))))))..)-----------)).)))))----------((........))........... ( -26.20)
>DroYak_CAF1 6232 99 + 1
GAAACUAGUUUACGCAACAUGUGGCAAUUUUGCAUGCCACAAGAGGCCACAGAGGACGUGCCACACAG-----------CGCACUGG----------GGAAAAGAAACCGAAACAAAAAU
....(((((...(((....(((((((.(((((...(((......)))..)))))....)))))))..)-----------)).)))))----------((........))........... ( -26.20)
>DroAna_CAF1 95355 114 + 1
GAAACUAGUUUACGCAACAUGUGGCCAUUUUGCAUGCCACAA-----CCCGGAGGACGUGCCACACAGCUCUGGCACUG-GCACUGGCUGUUGCUGAAGAGAAAAAACUGAAACAAAAAU
....((..((((.((((((((((((..........)))))).-----.((((..(..((((((........))))))..-.).)))).)))))))))).))................... ( -30.10)
>consensus
GAAACUAGUUUACGCAACAUGUGGCAAUUUUGCAUGCCACAAGAGGCCACAGAGGACGUGCCACACAGC____G_AC_GCGCACUGG__________GGAAAAGAAACCGAAACAAAAAU
.......((((.((.....(((((((.(((((...(((......)))..)))))....)))))))(((...............)))......................))))))...... (-17.36 = -17.84 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:10 2006