Locus 3058

Sequence ID 3R_DroMel_CAF1
Location 8,096,863 – 8,096,980
Length 117
Max. P 0.528464
window4948

overview

Window 8

Location 8,096,863 – 8,096,980
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.58
Mean single sequence MFE -44.35
Consensus MFE -32.59
Energy contribution -35.15
Covariance contribution 2.56
Combinations/Pair 1.11
Mean z-score -1.63
Structure conservation index 0.73
SVM decision value -0.01
SVM RNA-class probability 0.528464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8096863 117 + 27905053
GGAGGCUUUGGUUAUGGACGUCCCUUCUAUGGAGGCUAUGGCCGUCCCUUCUAUGG-AGGUUUCG--GAAGACCCUUCUACGGAGGCGGCUUCGGAGGUCCUUUCUUUGGUUAAAUCUAC
(((.(((..((....((((.(((((((((((((((..((....))..)))))))))-))).....--((((.((((((....)))).))))))))).))))...))..)))....))).. ( -43.60)
>DroSec_CAF1 48536 117 + 1
GGAGGCUUUGGUUAUGGACGACCCUUCUAUGGUGGCUACGGCCGUCCCUUCUAUGG-AGGUUACG--GAAGACCCUUCUAUGGCGGCGGCUUCGGAGGUCCUUUCUUUGGUUAAAUCUAC
.((((((.(.((((((((.(...(((((..(..(((....)))..)((((.....)-)))....)--))))...).)))))))).).))))))(((...((.......)).....))).. ( -37.00)
>DroSim_CAF1 20606 117 + 1
GGAGGCUUCGGUUAUGGACGUCCCUUCUACGGAGGCUACGGCCGUCCCUUCUAUGG-AGGUUACG--GAAGACCCUUCUACGGAGGCGGCUUCGGAGGUCCUUUCUUUGGUUAAAUCUAC
(((.(((..((....((((.(((((((((.((((((....))).)))......)))-))).....--((((.((((((....)))).))))))))).))))...))..)))....))).. ( -42.10)
>DroEre_CAF1 23600 120 + 1
GGAGGCUUUGGUUAUGGACGUCCCUUCUAUGGCGGCUAUGGUCGACCCUUUUAUGGCGGCUUUGGAGGAAGGCCCUUCUACGGAGGCGGCUUCGGAGGUCCUUUCUAUGGCUAAAUCUCC
(((((.(((((((((((((.(((((((((.(((.(((((((.........))))))).))).)))))).(((((((((....)))).))))).))).)))).....)))))))))))))) ( -54.70)
>consensus
GGAGGCUUUGGUUAUGGACGUCCCUUCUAUGGAGGCUACGGCCGUCCCUUCUAUGG_AGGUUACG__GAAGACCCUUCUACGGAGGCGGCUUCGGAGGUCCUUUCUUUGGUUAAAUCUAC
...((((..((....((((.(((((.(((((((((..((....))..))))))))).))........((((.((((((....)))).))))))))).))))...))..))))........ (-32.59 = -35.15 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:47 2006