miRNA display CGI


Results 1 - 20 of 28 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
8101 3' -61 NC_001978.2 + 38577 0.66 0.375272
Target:  5'- gCGCCgGGCACGUCG---GCGUUCg-- -3'
miRNA:   3'- -GCGGgCCGUGCGGCaguCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 40315 0.66 0.375272
Target:  5'- aGCCCGcuGUGCGCCcgucUCAGCG-CCUa- -3'
miRNA:   3'- gCGGGC--CGUGCGGc---AGUCGCaGGAac -5'
8101 3' -61 NC_001978.2 + 20504 0.66 0.375272
Target:  5'- gGUCgGGCACGCCuUCAaUGUCgUUGa -3'
miRNA:   3'- gCGGgCCGUGCGGcAGUcGCAGgAAC- -5'
8101 3' -61 NC_001978.2 + 15320 0.66 0.36672
Target:  5'- aCGCCaaCGGCAa--CGUCGGCGUUCg-- -3'
miRNA:   3'- -GCGG--GCCGUgcgGCAGUCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 34307 0.66 0.361654
Target:  5'- uGCCCGGCAUGuuGgacguugauacgggCAGCGgguaUCCg-- -3'
miRNA:   3'- gCGGGCCGUGCggCa-------------GUCGC----AGGaac -5'
8101 3' -61 NC_001978.2 + 15999 0.66 0.34512
Target:  5'- gCGCCCGuCGCGCCcguGUCGcccuugucgcccuucGCGcCCUUGa -3'
miRNA:   3'- -GCGGGCcGUGCGG---CAGU---------------CGCaGGAAC- -5'
8101 3' -61 NC_001978.2 + 17466 0.66 0.341879
Target:  5'- cCGCCgacCGuGUACGCauaGUCAGCGUCgUa- -3'
miRNA:   3'- -GCGG---GC-CGUGCGg--CAGUCGCAGgAac -5'
8101 3' -61 NC_001978.2 + 5847 0.66 0.341879
Target:  5'- uGCCacaGGUACuGaCCGUUcGCGUCCUUc -3'
miRNA:   3'- gCGGg--CCGUG-C-GGCAGuCGCAGGAAc -5'
8101 3' -61 NC_001978.2 + 11087 0.66 0.341072
Target:  5'- gCGCCCaGGCgacuucGCGCCcaaucgcgaacggGUCGGCGUUCg-- -3'
miRNA:   3'- -GCGGG-CCG------UGCGG-------------CAGUCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 38694 0.67 0.326006
Target:  5'- cCGCCCGGCGCGgcauUCGUUcaggauGCGUUCg-- -3'
miRNA:   3'- -GCGGGCCGUGC----GGCAGu-----CGCAGGaac -5'
8101 3' -61 NC_001978.2 + 30513 0.67 0.310686
Target:  5'- aGCgugUCGGCAagggaaCCGUCGGCGUCCg-- -3'
miRNA:   3'- gCG---GGCCGUgc----GGCAGUCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 1825 0.68 0.281705
Target:  5'- aGCCCuGU-UGCCGUcCGGCGUCCg-- -3'
miRNA:   3'- gCGGGcCGuGCGGCA-GUCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 35435 0.68 0.251076
Target:  5'- uGCCCaacaagaucacuuucGGCGCGuCCGUacuGGCGUCCg-- -3'
miRNA:   3'- gCGGG---------------CCGUGC-GGCAg--UCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 23003 0.69 0.242315
Target:  5'- cCGCCCGGguUGCCGa---CGUCCUUc -3'
miRNA:   3'- -GCGGGCCguGCGGCagucGCAGGAAc -5'
8101 3' -61 NC_001978.2 + 30295 0.69 0.238639
Target:  5'- gGcCCCGGCguuGCCGUugcgcucuucccgcaCAGCGUCCUUc -3'
miRNA:   3'- gC-GGGCCGug-CGGCA---------------GUCGCAGGAAc -5'
8101 3' -61 NC_001978.2 + 11425 0.69 0.236214
Target:  5'- aCGCCCGGCAUgaaaGCCGcCugaagGGCGUUCa-- -3'
miRNA:   3'- -GCGGGCCGUG----CGGCaG-----UCGCAGGaac -5'
8101 3' -61 NC_001978.2 + 26185 0.7 0.207621
Target:  5'- uCGCCCaggauGCGCGCagCGUCGGCGcCCUg- -3'
miRNA:   3'- -GCGGGc----CGUGCG--GCAGUCGCaGGAac -5'
8101 3' -61 NC_001978.2 + 12475 0.7 0.185469
Target:  5'- aCGUCCGGCACaCgGUCAGCGUgaacguggucgacgCCUUc -3'
miRNA:   3'- -GCGGGCCGUGcGgCAGUCGCA--------------GGAAc -5'
8101 3' -61 NC_001978.2 + 36795 0.7 0.182067
Target:  5'- gGCCUGGgGCGCCGUCuccGGC-UCCgUGa -3'
miRNA:   3'- gCGGGCCgUGCGGCAG---UCGcAGGaAC- -5'
8101 3' -61 NC_001978.2 + 32733 0.71 0.172648
Target:  5'- aCGCCCGGCG-GCuucccccagggCGUCAGCGUCa--- -3'
miRNA:   3'- -GCGGGCCGUgCG-----------GCAGUCGCAGgaac -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.