Locus 5441

Sequence ID X_DroMel_CAF1
Location 14,173,069 – 14,173,178
Length 109
Max. P 0.952568
window8823

overview

Window 3

Location 14,173,069 – 14,173,178
Length 109
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 77.96
Mean single sequence MFE -40.17
Consensus MFE -23.62
Energy contribution -25.18
Covariance contribution 1.56
Combinations/Pair 1.19
Mean z-score -2.35
Structure conservation index 0.59
SVM decision value 1.42
SVM RNA-class probability 0.952568
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14173069 109 - 22224390
CAAAAGGAGGGCUAUGAUGGG-GCAGGGUAGGCCAG-------GAGGAGGGUACCACCUACAGAAUGGGUGGUGUUGGGUGGCAGCACCACCGAGACGCACGUGUCAAAGGGAGCCA
.........((((.(((((.(-((.((((..(((..-------......)))...))))...(..(.((((((((((.....)))))))))).)..))).).))))).....)))). ( -38.40)
>DroSec_CAF1 83525 110 - 1
CAAAAGGAGGGCUAUGAUGGGUGUGGGGAAGGCCAG-------GGCGAGGGUACCACCAACAGGAUGGGUGGUGCUGGGUGGCAGCACCACCGAGACGCACGUGUCAAAGGGAGCGA
..........(((.(((((.((((((((...(((..-------......))).)).))....(..(.((((((((((.....)))))))))).)..))))).))))).....))).. ( -41.90)
>DroEre_CAF1 73484 107 - 1
CAAAAGGAGGGCUAUGCUGGG-GUAGGGUAGGCUAG-------GGGUAGCAUAC--CCUAUAGGGUGGGUGGUGUUGGCUGGCAGCACCGCCGAUACGCACGUGUCAAAGGGAGCCA
.........((((..(((...-((((((((.((((.-------...)))).)))--)))))..))).((((((((((.....))))))))))(((((....)))))......)))). ( -46.60)
>DroYak_CAF1 73869 112 - 1
CAAAAGGAGGGCUAUGCUA---GUAUGCUGGGCUGGAUACCAACGGAAUGGUAU--UCUAUGGGGUGAAUGAAGUUGGGUGGCAGCAGCAGCGAGACGCACGUGUCAAAGGGAGCCA
.........((((.(.((.---...(((((.((((....(((((...((..(((--((....))))).))...)))))....))))..))))).((((....))))..)).))))). ( -33.80)
>consensus
CAAAAGGAGGGCUAUGAUGGG_GUAGGGUAGGCCAG_______GGGGAGGGUAC__CCUACAGGAUGGGUGGUGUUGGGUGGCAGCACCACCGAGACGCACGUGUCAAAGGGAGCCA
.........((((.........(((((....(((...............)))....)))))......((((((((((.....))))))))))((.((....)).))......)))). (-23.62 = -25.18 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:58 2006