miRNA display CGI


Results 1 - 20 of 25 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
2934 5' -61.9 NC_001493.1 + 101305 0.66 0.646775
Target:  5'- aCGCCuCCCuCCGGAGuaccCCCGC-GAUc -3'
miRNA:   3'- gGCGG-GGGcGGCCUCuu--GGGUGaCUA- -5'
2934 5' -61.9 NC_001493.1 + 94685 0.66 0.646775
Target:  5'- gUCGUgCCCGaCCGGGGGuacguCCCGgUGGg -3'
miRNA:   3'- -GGCGgGGGC-GGCCUCUu----GGGUgACUa -5'
2934 5' -61.9 NC_001493.1 + 75138 0.66 0.636878
Target:  5'- aUGCCCCuUGCagcagCGGGGcGCCCGCUGu- -3'
miRNA:   3'- gGCGGGG-GCG-----GCCUCuUGGGUGACua -5'
2934 5' -61.9 NC_001493.1 + 19743 0.66 0.636878
Target:  5'- aCGCUCCCGCggcacCGGGGAucCCCAUgcaGGUg -3'
miRNA:   3'- gGCGGGGGCG-----GCCUCUu-GGGUGa--CUA- -5'
2934 5' -61.9 NC_001493.1 + 87618 0.66 0.626977
Target:  5'- cCCGUCCgCGCCGGuAGuGCCCGucGAg -3'
miRNA:   3'- -GGCGGGgGCGGCC-UCuUGGGUgaCUa -5'
2934 5' -61.9 NC_001493.1 + 113347 0.66 0.597326
Target:  5'- aCCGgUCCCGgUGGAaaggGAGCCCGCaGAUc -3'
miRNA:   3'- -GGCgGGGGCgGCCU----CUUGGGUGaCUA- -5'
2934 5' -61.9 NC_001493.1 + 19928 0.67 0.587481
Target:  5'- gCUGCUaCCCGCCGGuGu-CCCGgUGAc -3'
miRNA:   3'- -GGCGG-GGGCGGCCuCuuGGGUgACUa -5'
2934 5' -61.9 NC_001493.1 + 21056 0.67 0.567889
Target:  5'- aCGCUCCCGCggcacCGGGGAucCCCAUgGAg -3'
miRNA:   3'- gGCGGGGGCG-----GCCUCUu-GGGUGaCUa -5'
2934 5' -61.9 NC_001493.1 + 87716 0.67 0.567889
Target:  5'- gCGCCCCgGgaGGuGAGCCCGCg--- -3'
miRNA:   3'- gGCGGGGgCggCCuCUUGGGUGacua -5'
2934 5' -61.9 NC_001493.1 + 109151 0.67 0.567889
Target:  5'- -aGCCgCCGCaCGGGGAgagauggcgACCCGgUGAa -3'
miRNA:   3'- ggCGGgGGCG-GCCUCU---------UGGGUgACUa -5'
2934 5' -61.9 NC_001493.1 + 123660 0.67 0.558153
Target:  5'- cCCuCCCCCGagagagaggacCCGGAGAGCCCGa---- -3'
miRNA:   3'- -GGcGGGGGC-----------GGCCUCUUGGGUgacua -5'
2934 5' -61.9 NC_001493.1 + 8105 0.67 0.558153
Target:  5'- cCCuCCCCCGagagagaggacCCGGAGAGCCCGa---- -3'
miRNA:   3'- -GGcGGGGGC-----------GGCCUCUUGGGUgacua -5'
2934 5' -61.9 NC_001493.1 + 64225 0.67 0.538831
Target:  5'- gCGCCCCCGaccgacaaucCCGGGuGuACCCACUa-- -3'
miRNA:   3'- gGCGGGGGC----------GGCCU-CuUGGGUGAcua -5'
2934 5' -61.9 NC_001493.1 + 88066 0.68 0.523539
Target:  5'- cCUGCCCCCcgcggcguacgaggaGCCGGAucuACCC-CUGGa -3'
miRNA:   3'- -GGCGGGGG---------------CGGCCUcu-UGGGuGACUa -5'
2934 5' -61.9 NC_001493.1 + 5468 0.68 0.511238
Target:  5'- gUGCCCCCGCCacguccucauCCCACUGGa -3'
miRNA:   3'- gGCGGGGGCGGccucuu----GGGUGACUa -5'
2934 5' -61.9 NC_001493.1 + 121022 0.68 0.511238
Target:  5'- gUGCCCCCGCCacguccucauCCCACUGGa -3'
miRNA:   3'- gGCGGGGGCGGccucuu----GGGUGACUa -5'
2934 5' -61.9 NC_001493.1 + 85892 0.68 0.510297
Target:  5'- aUGCCUUCGuuGGuGAACCCAaUUGAUu -3'
miRNA:   3'- gGCGGGGGCggCCuCUUGGGU-GACUA- -5'
2934 5' -61.9 NC_001493.1 + 11364 0.68 0.490703
Target:  5'- gCCGCCUCaGCaCGGGGAuuugacggccgugGCCCAgUGGUg -3'
miRNA:   3'- -GGCGGGGgCG-GCCUCU-------------UGGGUgACUA- -5'
2934 5' -61.9 NC_001493.1 + 126918 0.68 0.490703
Target:  5'- gCCGCCUCaGCaCGGGGAuuugacggccgugGCCCAgUGGUg -3'
miRNA:   3'- -GGCGGGGgCG-GCCUCU-------------UGGGUgACUA- -5'
2934 5' -61.9 NC_001493.1 + 5390 0.69 0.464238
Target:  5'- cCCGCCCaaGuCCGG-GAGCCCcaccuACUGGa -3'
miRNA:   3'- -GGCGGGggC-GGCCuCUUGGG-----UGACUa -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.