miRNA display CGI


Results 1 - 20 of 49 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
19123 5' -57.1 NC_004684.1 + 43281 0.66 0.739103
Target:  5'- gCGucGGCGUGCCgGGCUGcgGCACcUUGa -3'
miRNA:   3'- gGC--CCGCACGG-CUGGCa-CGUGaAACc -5'
19123 5' -57.1 NC_004684.1 + 64958 0.66 0.739103
Target:  5'- gCGGGCGaUGUCGGCCuUGuCGCcggucUGGa -3'
miRNA:   3'- gGCCCGC-ACGGCUGGcAC-GUGaa---ACC- -5'
19123 5' -57.1 NC_004684.1 + 9824 0.66 0.739103
Target:  5'- gCGGGCGaUGUCGGCCaaccgGCGCa---- -3'
miRNA:   3'- gGCCCGC-ACGGCUGGca---CGUGaaacc -5'
19123 5' -57.1 NC_004684.1 + 24523 0.66 0.739103
Target:  5'- gCCGGGCGUGCggCGGCC-UGg---UUGGc -3'
miRNA:   3'- -GGCCCGCACG--GCUGGcACgugaAACC- -5'
19123 5' -57.1 NC_004684.1 + 31402 0.66 0.728999
Target:  5'- gCGGGCaccaccCCGACUGUGCGCcaggccugcgUGGa -3'
miRNA:   3'- gGCCCGcac---GGCUGGCACGUGaa--------ACC- -5'
19123 5' -57.1 NC_004684.1 + 43184 0.66 0.728999
Target:  5'- cUCGGcGCGaUGUCGggcaccgcaggcACCG-GCAUUUUGGg -3'
miRNA:   3'- -GGCC-CGC-ACGGC------------UGGCaCGUGAAACC- -5'
19123 5' -57.1 NC_004684.1 + 29737 0.66 0.718805
Target:  5'- aCCGGGuCGaUGCCuGACCGgGCgGCcaUGGc -3'
miRNA:   3'- -GGCCC-GC-ACGG-CUGGCaCG-UGaaACC- -5'
19123 5' -57.1 NC_004684.1 + 19485 0.66 0.718805
Target:  5'- gCCGaGGCc-GCCGACCGUggccuGCGCUa--- -3'
miRNA:   3'- -GGC-CCGcaCGGCUGGCA-----CGUGAaacc -5'
19123 5' -57.1 NC_004684.1 + 65447 0.66 0.708533
Target:  5'- gCGGcGCGcgGCC-ACCGUGCGCc--GGu -3'
miRNA:   3'- gGCC-CGCa-CGGcUGGCACGUGaaaCC- -5'
19123 5' -57.1 NC_004684.1 + 23089 0.66 0.708533
Target:  5'- gCGGcaagaacaGUGCCGaguucggcgacGCCGUGCACgagUGGu -3'
miRNA:   3'- gGCCcg------CACGGC-----------UGGCACGUGaa-ACC- -5'
19123 5' -57.1 NC_004684.1 + 10090 0.66 0.708533
Target:  5'- aCCGGGCaggGCUGGCCGggGUGCg---- -3'
miRNA:   3'- -GGCCCGca-CGGCUGGCa-CGUGaaacc -5'
19123 5' -57.1 NC_004684.1 + 8019 0.66 0.698192
Target:  5'- gCCGGGCGguuCCaggacACCGUGCGCg---- -3'
miRNA:   3'- -GGCCCGCac-GGc----UGGCACGUGaaacc -5'
19123 5' -57.1 NC_004684.1 + 56313 0.66 0.698192
Target:  5'- gCCGGGaCGUGgaGACCGcgcUGCGCg---- -3'
miRNA:   3'- -GGCCC-GCACggCUGGC---ACGUGaaacc -5'
19123 5' -57.1 NC_004684.1 + 16472 0.66 0.687792
Target:  5'- gCCGGGC-UGuCCGGCCacGUGCAgc-UGGc -3'
miRNA:   3'- -GGCCCGcAC-GGCUGG--CACGUgaaACC- -5'
19123 5' -57.1 NC_004684.1 + 20977 0.66 0.687792
Target:  5'- gCCGGGaCaUGCUGGCCGUGgACc---- -3'
miRNA:   3'- -GGCCC-GcACGGCUGGCACgUGaaacc -5'
19123 5' -57.1 NC_004684.1 + 27771 0.67 0.665803
Target:  5'- cCCGGGCuGUacaccccGcCCGACgGUGCGCggcGGu -3'
miRNA:   3'- -GGCCCG-CA-------C-GGCUGgCACGUGaaaCC- -5'
19123 5' -57.1 NC_004684.1 + 33881 0.67 0.656335
Target:  5'- aCCaGGCgGUGCgGGCgGUGC-CggUGGg -3'
miRNA:   3'- -GGcCCG-CACGgCUGgCACGuGaaACC- -5'
19123 5' -57.1 NC_004684.1 + 3526 0.67 0.656335
Target:  5'- aCGGGUGgGCCGACCuggcgGUGCAa---GGc -3'
miRNA:   3'- gGCCCGCaCGGCUGG-----CACGUgaaaCC- -5'
19123 5' -57.1 NC_004684.1 + 63733 0.67 0.656335
Target:  5'- -aGGGUgugcgcaucgGUGCCGACCG-GCAUgacccaggUGGc -3'
miRNA:   3'- ggCCCG----------CACGGCUGGCaCGUGaa------ACC- -5'
19123 5' -57.1 NC_004684.1 + 3838 0.67 0.646851
Target:  5'- --cGGCGUGCCGACCGacgaccacaccgaagGCACg---- -3'
miRNA:   3'- ggcCCGCACGGCUGGCa--------------CGUGaaacc -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.