Locus 5438

Sequence ID 2R_DroMel_CAF1
Location 17,489,706 – 17,489,826
Length 120
Max. P 0.553432
window8676

overview

Window 6

Location 17,489,706 – 17,489,826
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -31.73
Consensus MFE -19.58
Energy contribution -22.84
Covariance contribution 3.25
Combinations/Pair 1.09
Mean z-score -1.83
Structure conservation index 0.62
SVM decision value 0.04
SVM RNA-class probability 0.553432
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17489706 120 + 20766785
AUAACGACUGUGAAACUCGAUAGUUACUAGAUUGUUAUUCUGCUUUAGUUUAGUCGUGGUCAAAUCCCACUGAAAUGGGCCAGUCUAGUAGUUUUCCUCACAGUCCAGUGAGUCGAAUGA
.....((((((((.....((.(..((((((((((.......((((...((((((.(.((......)))))))))..))))))))))))))..).)).))))))))............... ( -32.61)
>DroSec_CAF1 17533 120 + 1
ACAACGACUGUGAAACUCUAUAGUUACUAGAUUGUUAUUCUGCUUCCAUUUAGUCGUGGUCAAAUCCAACUGAAAUGGGCCAGUCUAGUAAUUUUUCUCACAGUCCAGUGAGUCGAAUGA
.((..((((((((........(((((((((((((.......((..(((((((((..(((......))))))).))))))))))))))))))))....))))))))...)).......... ( -34.21)
>DroSim_CAF1 30394 120 + 1
ACAACGACUGUGAAACUCUAUAGUUACUAGAUUGUUAUUCUGCUUCCAUUUAGUCGUGGUCAAAUCCAACUGAAAUGGGCCAGUCUAGUAAUUUUCCUCACAGUCCAGUGAGUCGAAUGG
.((..((((((((........(((((((((((((.......((..(((((((((..(((......))))))).))))))))))))))))))))....))))))))...)).......... ( -34.21)
>DroYak_CAF1 26583 105 + 1
ACUGCAGUUGGGAAACUCGAUCGAUACUAGCUGGU---------------UAGUCGUGGUCAAAUCCAACUGAAAUGGGCCAGUCCAGUAAAUUUCCUCACAGUCCAGUGGGUCAAAUGA
....((((((((.....)(((((..(((((....)---------------))))..)))))....)))))))...((((....)))).........(((((......)))))........ ( -25.90)
>consensus
ACAACGACUGUGAAACUCGAUAGUUACUAGAUUGUUAUUCUGCUUCCAUUUAGUCGUGGUCAAAUCCAACUGAAAUGGGCCAGUCUAGUAAUUUUCCUCACAGUCCAGUGAGUCGAAUGA
.....((((((((........(((((((((((((.......((((...((((((..(((......)))))))))..)))))))))))))))))....))))))))............... (-19.58 = -22.84 +   3.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:51 2006