miRNA display CGI


Results 1 - 20 of 66 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
21410 3' -56.6 NC_004812.1 + 5470 0.67 0.842701
Target:  5'- aCCagggCCaCGGGGGGGCgAGg--GUCAc-- -3'
miRNA:   3'- -GGa---GG-GCCCCCCCG-UCauaCAGUuug -5'
21410 3' -56.6 NC_004812.1 + 5697 0.72 0.574533
Target:  5'- gUCUCCCagggccacGGGGGGGCGGgg-GUCugccGCg -3'
miRNA:   3'- -GGAGGG--------CCCCCCCGUCauaCAGuu--UG- -5'
21410 3' -56.6 NC_004812.1 + 7845 0.7 0.685699
Target:  5'- cUCUCUCGGGGcGGgGGUcgGUCGuAGCg -3'
miRNA:   3'- -GGAGGGCCCCcCCgUCAuaCAGU-UUG- -5'
21410 3' -56.6 NC_004812.1 + 8618 0.67 0.858362
Target:  5'- gCCUCCCGGuaauggacgcGaGGGGCGGg--GgagCGGGCg -3'
miRNA:   3'- -GGAGGGCC----------C-CCCCGUCauaCa--GUUUG- -5'
21410 3' -56.6 NC_004812.1 + 12281 0.75 0.414186
Target:  5'- aCCUgCCCGGGGGGGCGGag---CGAAa -3'
miRNA:   3'- -GGA-GGGCCCCCCCGUCauacaGUUUg -5'
21410 3' -56.6 NC_004812.1 + 14566 0.67 0.858362
Target:  5'- aCUCCCGcaGGGGCAGgcccgCGGGCg -3'
miRNA:   3'- gGAGGGCccCCCCGUCauacaGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 16446 0.67 0.86515
Target:  5'- cCCUCCCacgcaucgaguuuGGGGuGGGCGGgucGUGUUuccGCc -3'
miRNA:   3'- -GGAGGG-------------CCCC-CCCGUCa--UACAGuu-UG- -5'
21410 3' -56.6 NC_004812.1 + 16503 0.66 0.88723
Target:  5'- aCCggCCGGGGGGcGCGGgggcgAUGcgcUCAcGCg -3'
miRNA:   3'- -GGagGGCCCCCC-CGUCa----UAC---AGUuUG- -5'
21410 3' -56.6 NC_004812.1 + 25438 0.66 0.900356
Target:  5'- -gUCCCGGGGGcgggguuuaGGCAGccgugGUGgucgcgCGGGCa -3'
miRNA:   3'- ggAGGGCCCCC---------CCGUCa----UACa-----GUUUG- -5'
21410 3' -56.6 NC_004812.1 + 30396 0.68 0.817818
Target:  5'- uCCUCCgGGGGcGcGGCGGccu-UCAGGCa -3'
miRNA:   3'- -GGAGGgCCCC-C-CCGUCauacAGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 30814 0.72 0.564528
Target:  5'- gCC-CCaCGGGGGGGCAGggcggcGcCAGGCg -3'
miRNA:   3'- -GGaGG-GCCCCCCCGUCaua---CaGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 36371 0.67 0.842701
Target:  5'- aCCagggCCaCGGGGGGGCgAGg--GUCAc-- -3'
miRNA:   3'- -GGa---GG-GCCCCCCCG-UCauaCAGUuug -5'
21410 3' -56.6 NC_004812.1 + 36598 0.72 0.574533
Target:  5'- gUCUCCCagggccacGGGGGGGCGGgg-GUCugccGCg -3'
miRNA:   3'- -GGAGGG--------CCCCCCCGUCauaCAGuu--UG- -5'
21410 3' -56.6 NC_004812.1 + 38746 0.7 0.685699
Target:  5'- cUCUCUCGGGGcGGgGGUcgGUCGuAGCg -3'
miRNA:   3'- -GGAGGGCCCCcCCgUCAuaCAGU-UUG- -5'
21410 3' -56.6 NC_004812.1 + 39519 0.67 0.858362
Target:  5'- gCCUCCCGGuaauggacgcGaGGGGCGGg--GgagCGGGCg -3'
miRNA:   3'- -GGAGGGCC----------C-CCCCGUCauaCa--GUUUG- -5'
21410 3' -56.6 NC_004812.1 + 43253 0.7 0.714571
Target:  5'- aCC-CCCGGGgugaugguggcgaGGGGCAGgGUaUCGAACg -3'
miRNA:   3'- -GGaGGGCCC-------------CCCCGUCaUAcAGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 45454 0.68 0.817818
Target:  5'- gCUCcgCCGGGGGGGCgAGgagccCGAGCg -3'
miRNA:   3'- gGAG--GGCCCCCCCG-UCauacaGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 46516 0.68 0.810053
Target:  5'- gCCcCCCGGGGGGGCccacggggccucuccGUAcuccccGUCGGGCc -3'
miRNA:   3'- -GGaGGGCCCCCCCGu--------------CAUa-----CAGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 49557 0.7 0.685699
Target:  5'- cCCUCUCgcugGGGGGGGCcuccgcGUCGAACu -3'
miRNA:   3'- -GGAGGG----CCCCCCCGucaua-CAGUUUG- -5'
21410 3' -56.6 NC_004812.1 + 54961 0.72 0.5506
Target:  5'- aCgCCCGGGGGGuaGCGGUAgagccccucggggGUCGGGCg -3'
miRNA:   3'- gGaGGGCCCCCC--CGUCAUa------------CAGUUUG- -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.