miRNA display CGI


Results 1 - 20 of 36 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
16400 5' -56.9 NC_004084.1 + 29098 0.66 0.640412
Target:  5'- gGGCGGCCACUccugGGGCGUCGCGGUu -3'
miRNA:   3'- gUCGCUGGUGAcg--CUUGUGGCGUCGu -5'
16400 5' -56.9 NC_004084.1 + 39939 0.66 0.629465
Target:  5'- uCAGCGugCu---CGAcgGCGCCGCGGCc -3'
miRNA:   3'- -GUCGCugGugacGCU--UGUGGCGUCGu -5'
16400 5' -56.9 NC_004084.1 + 28285 0.66 0.61852
Target:  5'- aCAGaGACCAUgaccggagGCGAuguCCGCGGCGa -3'
miRNA:   3'- -GUCgCUGGUGa-------CGCUuguGGCGUCGU- -5'
16400 5' -56.9 NC_004084.1 + 49973 0.66 0.61852
Target:  5'- uCGGCGACUcguCUcGCGGACGCUGguGa- -3'
miRNA:   3'- -GUCGCUGGu--GA-CGCUUGUGGCguCgu -5'
16400 5' -56.9 NC_004084.1 + 28875 0.66 0.61852
Target:  5'- gGGCGuuCCGCaGCGAGaucuCGCCGCGGg- -3'
miRNA:   3'- gUCGCu-GGUGaCGCUU----GUGGCGUCgu -5'
16400 5' -56.9 NC_004084.1 + 9870 0.66 0.607588
Target:  5'- -uGUGGaggCGCUGuCGAACgGCCGCAGCc -3'
miRNA:   3'- guCGCUg--GUGAC-GCUUG-UGGCGUCGu -5'
16400 5' -56.9 NC_004084.1 + 39852 0.66 0.606495
Target:  5'- uCGGCGGCCGCggcgccGuCGAGCacgcugaGCUGCAGUg -3'
miRNA:   3'- -GUCGCUGGUGa-----C-GCUUG-------UGGCGUCGu -5'
16400 5' -56.9 NC_004084.1 + 578 0.66 0.585794
Target:  5'- --cCGACCGCU-UGAACugCGcCAGCAg -3'
miRNA:   3'- gucGCUGGUGAcGCUUGugGC-GUCGU- -5'
16400 5' -56.9 NC_004084.1 + 50479 0.67 0.579283
Target:  5'- uCGGgGAaaACUGCGAagugagcguccgagaACugCGCGGCGu -3'
miRNA:   3'- -GUCgCUggUGACGCU---------------UGugGCGUCGU- -5'
16400 5' -56.9 NC_004084.1 + 53148 0.67 0.579283
Target:  5'- gUAGUGAggucggacgucucguUUACUGCGGACGCCGUgccAGCc -3'
miRNA:   3'- -GUCGCU---------------GGUGACGCUUGUGGCG---UCGu -5'
16400 5' -56.9 NC_004084.1 + 5449 0.67 0.574951
Target:  5'- uCGGCGACCagcgcACUcGCGAcgaucacgacgACGCCGaCGGCc -3'
miRNA:   3'- -GUCGCUGG-----UGA-CGCU-----------UGUGGC-GUCGu -5'
16400 5' -56.9 NC_004084.1 + 44587 0.67 0.564153
Target:  5'- gGGCGACCGCUucGCGGAacuccucguCAUCGUuuaGGCGa -3'
miRNA:   3'- gUCGCUGGUGA--CGCUU---------GUGGCG---UCGU- -5'
16400 5' -56.9 NC_004084.1 + 5549 0.67 0.564153
Target:  5'- aGGCGACCcCU-CG-GCACCGCucgAGCAg -3'
miRNA:   3'- gUCGCUGGuGAcGCuUGUGGCG---UCGU- -5'
16400 5' -56.9 NC_004084.1 + 36243 0.67 0.55341
Target:  5'- cCGGUGGgCGCUGCGAucccuCCGcCAGCu -3'
miRNA:   3'- -GUCGCUgGUGACGCUugu--GGC-GUCGu -5'
16400 5' -56.9 NC_004084.1 + 23949 0.67 0.532117
Target:  5'- aAGCGAUCACcGCGucCAUCGCgagGGCGc -3'
miRNA:   3'- gUCGCUGGUGaCGCuuGUGGCG---UCGU- -5'
16400 5' -56.9 NC_004084.1 + 19078 0.67 0.532117
Target:  5'- -cGCGGCCGuCUaCGucgacgucgaucAGCACCGCGGCGg -3'
miRNA:   3'- guCGCUGGU-GAcGC------------UUGUGGCGUCGU- -5'
16400 5' -56.9 NC_004084.1 + 58261 0.68 0.515298
Target:  5'- -cGCGACCacuacgccugcccugGCUGCGGGCGCUcuGCGGaCGa -3'
miRNA:   3'- guCGCUGG---------------UGACGCUUGUGG--CGUC-GU- -5'
16400 5' -56.9 NC_004084.1 + 51977 0.68 0.511126
Target:  5'- aCGGCGACCAgUGggcguuCGAACugaaGCCGCGGg- -3'
miRNA:   3'- -GUCGCUGGUgAC------GCUUG----UGGCGUCgu -5'
16400 5' -56.9 NC_004084.1 + 46820 0.68 0.499728
Target:  5'- -cGCGACCugcgacaACUGCGGcgACACCGUucAGUg -3'
miRNA:   3'- guCGCUGG-------UGACGCU--UGUGGCG--UCGu -5'
16400 5' -56.9 NC_004084.1 + 29063 0.68 0.490487
Target:  5'- aCGGCGAgcuUCACcGCGAACGCgGCgugGGCGc -3'
miRNA:   3'- -GUCGCU---GGUGaCGCUUGUGgCG---UCGU- -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.