miRNA display CGI


Results 1 - 20 of 23 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
27973 3' -57.6 NC_005886.2 + 40912 0.66 0.603007
Target:  5'- gCCGCUgcgGuuGCCGacacagCCauGACGGUGCg -3'
miRNA:   3'- -GGUGGa--CggCGGCa-----GGgcUUGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 44647 0.66 0.603007
Target:  5'- gCC-CCUGUCGaCCGccaCCCGgAAUGAUuGCg -3'
miRNA:   3'- -GGuGGACGGC-GGCa--GGGC-UUGCUA-CG- -5'
27973 3' -57.6 NC_005886.2 + 36241 0.66 0.60193
Target:  5'- nCCGCCcgUGCCGCCGcgUgggaaaaauucgaCCCGuGCGcaGUGCu -3'
miRNA:   3'- -GGUGG--ACGGCGGC--A-------------GGGCuUGC--UACG- -5'
27973 3' -57.6 NC_005886.2 + 14614 0.67 0.548602
Target:  5'- aUCGCCUcguacgcGUCGCCgGUUCCGAuCGAggaaUGCa -3'
miRNA:   3'- -GGUGGA-------CGGCGG-CAGGGCUuGCU----ACG- -5'
27973 3' -57.6 NC_005886.2 + 19169 0.67 0.528701
Target:  5'- aCCAUCUGCaacgGCCGcUUCG-AUGAUGCu -3'
miRNA:   3'- -GGUGGACGg---CGGCaGGGCuUGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 16199 0.68 0.487746
Target:  5'- aCCGCCUGCCggguuacgcGCCGgUCUgacgguagguugCGAACGG-GCg -3'
miRNA:   3'- -GGUGGACGG---------CGGC-AGG------------GCUUGCUaCG- -5'
27973 3' -57.6 NC_005886.2 + 13362 0.68 0.467834
Target:  5'- gCACCaGCCGUcacggcuugcagCGUUgCGAGCGcgGCg -3'
miRNA:   3'- gGUGGaCGGCG------------GCAGgGCUUGCuaCG- -5'
27973 3' -57.6 NC_005886.2 + 3395 0.68 0.438775
Target:  5'- aCCGCCUGCCGuuaaaugaauaCCGUUuuGugcccaGGUGCc -3'
miRNA:   3'- -GGUGGACGGC-----------GGCAGggCuug---CUACG- -5'
27973 3' -57.6 NC_005886.2 + 42458 0.68 0.438775
Target:  5'- gUACC-GCCGCacUCCgGGugGAUGCg -3'
miRNA:   3'- gGUGGaCGGCGgcAGGgCUugCUACG- -5'
27973 3' -57.6 NC_005886.2 + 30958 0.69 0.419986
Target:  5'- aCUACCUccGCUGCCGUCuucagCCGAACGccGa -3'
miRNA:   3'- -GGUGGA--CGGCGGCAG-----GGCUUGCuaCg -5'
27973 3' -57.6 NC_005886.2 + 17200 0.69 0.419986
Target:  5'- aCCGCUgucGCCGCUGUCgCCGGucuCGAUu- -3'
miRNA:   3'- -GGUGGa--CGGCGGCAG-GGCUu--GCUAcg -5'
27973 3' -57.6 NC_005886.2 + 20314 0.69 0.414444
Target:  5'- gCAuCCUGCaCGCUGUCaUCGGgaagguuuucgcgcaACGAUGCg -3'
miRNA:   3'- gGU-GGACG-GCGGCAG-GGCU---------------UGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 10451 0.7 0.349954
Target:  5'- uCCGCUUGuuGCCG-CgUGA-CGAUGCc -3'
miRNA:   3'- -GGUGGACggCGGCaGgGCUuGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 36370 0.74 0.212959
Target:  5'- nCCGCCgaUGCCGCCGaUgCCGccgcCGAUGCc -3'
miRNA:   3'- -GGUGG--ACGGCGGC-AgGGCuu--GCUACG- -5'
27973 3' -57.6 NC_005886.2 + 36271 0.74 0.20214
Target:  5'- gCCGCCgaUGCCGcCCGUgCCGccgcCGAUGCc -3'
miRNA:   3'- -GGUGG--ACGGC-GGCAgGGCuu--GCUACG- -5'
27973 3' -57.6 NC_005886.2 + 36397 0.75 0.167967
Target:  5'- aCCGCCcgUGCCGcCCGUgCCGc-CGAUGCc -3'
miRNA:   3'- -GGUGG--ACGGC-GGCAgGGCuuGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 31638 0.76 0.154971
Target:  5'- aCCGCCUGCCGaCGaaCUGcGCGAUGCu -3'
miRNA:   3'- -GGUGGACGGCgGCagGGCuUGCUACG- -5'
27973 3' -57.6 NC_005886.2 + 26682 0.76 0.142893
Target:  5'- gCCGCUUGuuGCCGUCCgauuCGAGCGugacgGCg -3'
miRNA:   3'- -GGUGGACggCGGCAGG----GCUUGCua---CG- -5'
27973 3' -57.6 NC_005886.2 + 36322 0.76 0.139062
Target:  5'- gCCGCC-GCCGCCG-CCCGugccgccgcCGAUGCc -3'
miRNA:   3'- -GGUGGaCGGCGGCaGGGCuu-------GCUACG- -5'
27973 3' -57.6 NC_005886.2 + 16758 0.77 0.131681
Target:  5'- -aACCUGCCGgCGUacgucgcagugCCGAACGGUGCg -3'
miRNA:   3'- ggUGGACGGCgGCAg----------GGCUUGCUACG- -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.