Locus 1673

Sequence ID 3L_DroMel_CAF1
Location 4,861,167 – 4,861,281
Length 114
Max. P 0.998559
window2584

overview

Window 4

Location 4,861,167 – 4,861,281
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 71.93
Mean single sequence MFE -21.84
Consensus MFE -9.16
Energy contribution -9.44
Covariance contribution 0.28
Combinations/Pair 1.11
Mean z-score -2.67
Structure conservation index 0.42
SVM decision value 3.14
SVM RNA-class probability 0.998559
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4861167 114 + 23771897
UUUCAUCCUCAAACUAAAAUUUCUUUUCAAUCUACUGACUUUAUUCUCUGUGUUCCGGAAACUCCGUUGCGCUGAAGCAUAAAAUCACCAUAGCAUGUAGCUGGUUUUAGACAU
.............(((((((...............(((.(((((.(((.((((..(((.....)))..)))).).)).))))).)))...((((.....))))))))))).... ( -22.40)
>DroSec_CAF1 88932 91 + 1
UUUCAUCCCCAAAUUAAAAUUUCUUUUCCAUCUACUGAUUUUAUUCUCUGUGUUCCGGAAACUCCGUUGCGCUGAAGCAUAAAAUCACCA-----------------------U
...................................(((((((((.(((.((((..(((.....)))..)))).).)).)))))))))...-----------------------. ( -18.60)
>DroSim_CAF1 93235 114 + 1
UUUCUUCCUCGAACUAAAAUUUCUUUUCCAUCUACUGACUUCAUUCUCUGUGUUCCGGAAACUCCGUUGCGCUGAAGCAUAAAAUCACCAUAGCAUGUAGCUGGUUUUAGACAU
.............(((((((...............((.(((((......((((..(((.....)))..)))))))))))...........((((.....))))))))))).... ( -20.60)
>DroEre_CAF1 90127 96 + 1
UUUCUUCCGCAAAUUAAGAUUUAUG------------------UUCCCUGUGUUCCGGAAACUCCGUUGCGCUGGAGCAUUAAAUCUCCGUAGCAUGUAGCUGGCUUUAGACAU
..(((...((......(((((((((------------------((((..((((..(((.....)))..)))).)))))).)))))))...((((.....))))))...)))... ( -30.20)
>DroYak_CAF1 90408 91 + 1
UUUCUCCCUCAAAUUAAAACUUUAU------------------UUCUCUGUGUUUCGGAAACUCC-----GCUGAAGCAUAAAAUCUACAUAUCAUGUAGCUGGUUUUAUACAU
..............(((((((....------------------.....((((((((((.......-----.))))))))))....((((((...))))))..)))))))..... ( -17.40)
>consensus
UUUCUUCCUCAAAUUAAAAUUUCUUUUC_AUCUACUGA_UU_AUUCUCUGUGUUCCGGAAACUCCGUUGCGCUGAAGCAUAAAAUCACCAUAGCAUGUAGCUGGUUUUAGACAU
..............................................((.((((..(((.....)))..)))).))....................................... ( -9.16 =  -9.44 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:23 2006