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
10848 3' -53.2 NC_002794.1 + 136144 0.66 0.989299
Target:  5'- --aGGGCgAGGACGgggGCGa--AGAGGa -3'
miRNA:   3'- gcaUCCGgUCCUGCa--UGCacaUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 116145 0.66 0.989299
Target:  5'- gCGgcGGCCAGGGCcUGCaccgccuccGUGggcAGGGGu -3'
miRNA:   3'- -GCauCCGGUCCUGcAUG---------CACa--UCUCC- -5'
10848 3' -53.2 NC_002794.1 + 9729 0.66 0.987897
Target:  5'- --gAGGCCAGGcACcggGUGgGUagGUGGGGGg -3'
miRNA:   3'- gcaUCCGGUCC-UG---CAUgCA--CAUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 108321 0.67 0.98283
Target:  5'- gGUGGGUCuuGGACGgcgGCGcagGaGGAGGu -3'
miRNA:   3'- gCAUCCGGu-CCUGCa--UGCa--CaUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 147220 0.67 0.98283
Target:  5'- --gGGGCCGGGGCGUugGcgcgaUGggcccgAGAGc -3'
miRNA:   3'- gcaUCCGGUCCUGCAugC-----ACa-----UCUCc -5'
10848 3' -53.2 NC_002794.1 + 111497 0.67 0.98283
Target:  5'- uCGaGGGCCAGGACGagagACc---GGAGGg -3'
miRNA:   3'- -GCaUCCGGUCCUGCa---UGcacaUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 118262 0.67 0.976309
Target:  5'- gGUcGGCCGGGGCGgcgGCGccggcGUcGGGGa -3'
miRNA:   3'- gCAuCCGGUCCUGCa--UGCa----CAuCUCC- -5'
10848 3' -53.2 NC_002794.1 + 132584 0.67 0.973513
Target:  5'- gGUGGGCCGcuucaccGGGCGUgACGUGguucAGcGGg -3'
miRNA:   3'- gCAUCCGGU-------CCUGCA-UGCACa---UCuCC- -5'
10848 3' -53.2 NC_002794.1 + 187507 0.68 0.968133
Target:  5'- aGgcGGCCAGGGCGccCGc--GGAGGa -3'
miRNA:   3'- gCauCCGGUCCUGCauGCacaUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 123770 0.68 0.968133
Target:  5'- --cGGGCguGGACGccucCGUGuUGGAGGc -3'
miRNA:   3'- gcaUCCGguCCUGCau--GCAC-AUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 115462 0.68 0.96501
Target:  5'- uCGgagAGGCgGGGACGcGgGUgcagGUAGAGGu -3'
miRNA:   3'- -GCa--UCCGgUCCUGCaUgCA----CAUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 114383 0.68 0.96501
Target:  5'- gCGUAGGCCuuGACGUccuUGUGaUGGAGc -3'
miRNA:   3'- -GCAUCCGGucCUGCAu--GCAC-AUCUCc -5'
10848 3' -53.2 NC_002794.1 + 117737 0.68 0.958131
Target:  5'- aCGUAGGCCuGGAUGguccgcGCGUGgugcgcAGcAGGu -3'
miRNA:   3'- -GCAUCCGGuCCUGCa-----UGCACa-----UC-UCC- -5'
10848 3' -53.2 NC_002794.1 + 67076 0.69 0.95038
Target:  5'- ---uGGCCuuGAUGUACGUGUcGGGGc -3'
miRNA:   3'- gcauCCGGucCUGCAUGCACAuCUCC- -5'
10848 3' -53.2 NC_002794.1 + 119298 0.69 0.93609
Target:  5'- --cAGGCCAGGGCGaGCugacagagcucGUGGAGGa -3'
miRNA:   3'- gcaUCCGGUCCUGCaUGca---------CAUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 112113 0.7 0.927009
Target:  5'- ---cGGCCGGGACGacgGCGcGgGGAGGu -3'
miRNA:   3'- gcauCCGGUCCUGCa--UGCaCaUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 143064 0.7 0.916031
Target:  5'- cCGUAGcGCCcGcGGCGgcagACGUaGUGGAGGu -3'
miRNA:   3'- -GCAUC-CGGuC-CUGCa---UGCA-CAUCUCC- -5'
10848 3' -53.2 NC_002794.1 + 126730 0.71 0.891302
Target:  5'- gGUGGGUgGGGACGgugggACG-GUGGuGGu -3'
miRNA:   3'- gCAUCCGgUCCUGCa----UGCaCAUCuCC- -5'
10848 3' -53.2 NC_002794.1 + 95889 0.73 0.788173
Target:  5'- cCGgcGGCgAGGGCGcacgACGUGgugcgGGAGGu -3'
miRNA:   3'- -GCauCCGgUCCUGCa---UGCACa----UCUCC- -5'
10848 3' -53.2 NC_002794.1 + 95779 0.74 0.750994
Target:  5'- aCGgcGGCCGGGGCGagagGCGcgGcGGAGGa -3'
miRNA:   3'- -GCauCCGGUCCUGCa---UGCa-CaUCUCC- -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.