Locus 326

Sequence ID 3R_DroMel_CAF1
Location 1,250,191 – 1,250,307
Length 116
Max. P 0.862729
window548

overview

Window 8

Location 1,250,191 – 1,250,307
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 76.16
Mean single sequence MFE -31.75
Consensus MFE -17.91
Energy contribution -19.60
Covariance contribution 1.69
Combinations/Pair 1.07
Mean z-score -2.09
Structure conservation index 0.56
SVM decision value 0.84
SVM RNA-class probability 0.862729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1250191 116 + 27905053
GGCAGCGUCUGCGCUGCGUACACGGGAAAACCCGUCUGCAGGGAGAAAGCGUAGACUAUUUUUUUAGAGAAGCACUUUAAAUGAAAAGCUGCUGAGAAGGUGGUUUUAAGUGGGCA
.((((((....))))))(((.(((((....))))).))).....(...((..(((((((((((((((...(((..(((....)))..))).)))))))))))))))...))...). ( -41.30)
>DroSec_CAF1 25413 114 + 1
GGCAGCGUCUGCUCUACGUACACGGGAAAACCCGUCUGCAGGGAGUAAACGUAGACUAUU--UUUAGAGAAGCACUUUAAAUGAAAAGCUGCCGAGAAGGUGGUUUUAAGUGGGCA
.((.((((.((((((..(((.(((((....))))).)))..)))))).))))...(((((--(((((((.....))))))....(((((..((.....))..))))))))))))). ( -40.30)
>DroEre_CAF1 24703 90 + 1
GGCAGCGUCUGCGCUACGUACACGGGAAAACCCG--------------------ACUAUU--UUUAGAAAAGCACUUAAUAUCAAAACCUGCAAA---GGUGGUUU-AAAUGGACU
.((((...))))(((.......((((....))))--------------------.(((..--..)))...))).............((((....)---)))(((((-....))))) ( -18.20)
>DroYak_CAF1 28838 101 + 1
GGCAGAGUCUGCGCUACGUACACGGGAAAUCCCGUCUGCAGGAAGAAA-AGUAGACUAUU--UUUAGAGAAGCACUU---AUCAAAAGCUGCAAAGAAGGUGGCUU-A--------
.((..(((((((.((.((((.(((((....))))).))).)..))...-.))))))).((--(.....)))))....---.....((((..(.......)..))))-.-------- ( -27.20)
>consensus
GGCAGCGUCUGCGCUACGUACACGGGAAAACCCGUCUGCAGGGAGAAA_CGUAGACUAUU__UUUAGAGAAGCACUUUAAAUCAAAAGCUGCAAAGAAGGUGGUUU_AAGUGGGCA
.((((...))))((((((((.(((((....))))).)))................(((......)))....(((((((......)))).))).......)))))............ (-17.91 = -19.60 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:29 2006