Locus 4076

Sequence ID 2R_DroMel_CAF1
Location 13,453,808 – 13,453,919
Length 111
Max. P 0.550093
window6564

overview

Window 4

Location 13,453,808 – 13,453,919
Length 111
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 90.51
Mean single sequence MFE -38.08
Consensus MFE -28.68
Energy contribution -29.08
Covariance contribution 0.40
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.75
SVM decision value 0.03
SVM RNA-class probability 0.550093
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13453808 111 - 20766785
AACAUAAUGAUAGCGGCAAAUCUCCCCGAUUGGCAGCACCAGCAGCGCUGG----CAGC-AGCUAAGUGC-UCAAGAGGCAACGUUGCGUAUACGUAACGUUUGGCAUGGUUACGCA
............(((((.((((.....)))).))...(((((.((((((((----(...-.))).)))))-))....(.((((((((((....))))))).))).).))))..))). ( -36.30)
>DroSec_CAF1 2705 110 - 1
AACUUAAUGAUAGCGGCAAAUCUCCUCGAUUGGCAGCACCAGCAGCGCUGG----CAGC-AGCUAAGGGC-UCGAGGGGCAACGUUGCGUAUACGUAACGUUU-GCAUGGUUACGCA
............(((...((((((((((((((((.((.(((((...)))))----..))-.)))))....-)))))))(((((((((((....))))))).))-))..)))).))). ( -42.70)
>DroSim_CAF1 2854 110 - 1
AACUUAAUGAUAGCGGCAAAUCUCCUCGAUUGGCAGCACCAGCAGCGCUGG----CAGC-AGCUAAGGGC-UCAAGGGGCAACGUUGCGUAUACGUAACGUUU-GCAUGGUUACGCA
............(((...((((((((.(((((((.((.(((((...)))))----..))-.)))))....-)).))))(((((((((((....))))))).))-))..)))).))). ( -36.80)
>DroEre_CAF1 3166 110 - 1
AACUUAAUGAUAGCGGCAAAUCUCGCCGAUUGGCAGCACCAGCAGCGCAAC----CCGC-AGCUAAGGGC-UCAAGAGGCAACGUUGCGUAUACGUAACGUUU-GCAUGGAUGCGCA
............(((.((...((((((....)))(((.(((((.(((....----.)))-.)))..))))-)...)))(((((((((((....))))))).))-)).....))))). ( -37.20)
>DroYak_CAF1 3288 116 - 1
AACUUAAUGAUAGCGGCAAAUCUCCACGAUUGGCAGCGCCAGCAGCGCAACUUAACUGCGGGCUAAGGGCGUCGAGAGGCAACGCUGCGUAUACGUAACGUUU-GCAUGGUUGCGCA
............(((((....(((((....))).)).))).)).((((((((....(((((((.......(((....)))...(.((((....)))).)))))-))).)))))))). ( -37.40)
>consensus
AACUUAAUGAUAGCGGCAAAUCUCCCCGAUUGGCAGCACCAGCAGCGCUGG____CAGC_AGCUAAGGGC_UCAAGAGGCAACGUUGCGUAUACGUAACGUUU_GCAUGGUUACGCA
............(((((.((((.....)))).))...(((((((((((((.....))))..)))....((.(....).))(((((((((....)))))))))..)).))))..))). (-28.68 = -29.08 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:10 2006