miRNA display CGI


Results 1 - 18 of 18 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
12402 3' -57.2 NC_003324.1 + 1526 0.66 0.609907
Target:  5'- --aUCCGGCGGCaguGGUgcgCGGCGCUa-- -3'
miRNA:   3'- ggaAGGUCGUUG---CCGa--GCCGCGAcua -5'
12402 3' -57.2 NC_003324.1 + 14810 0.66 0.603364
Target:  5'- gCggCCGGCAucggcagcuuccuggGCGGCaUCGGCGgaCUGAUc -3'
miRNA:   3'- gGaaGGUCGU---------------UGCCG-AGCCGC--GACUA- -5'
12402 3' -57.2 NC_003324.1 + 29013 0.66 0.599006
Target:  5'- gCUUCCuuAGCAGCGcGCUCGaCGC-GGUa -3'
miRNA:   3'- gGAAGG--UCGUUGC-CGAGCcGCGaCUA- -5'
12402 3' -57.2 NC_003324.1 + 38082 0.66 0.599006
Target:  5'- gCCUUCUGGCGAaGcGCgUCGGCGCcgugcUGGUg -3'
miRNA:   3'- -GGAAGGUCGUUgC-CG-AGCCGCG-----ACUA- -5'
12402 3' -57.2 NC_003324.1 + 35207 0.66 0.588134
Target:  5'- gCUga-GGuCAACGGCgaCGGCGCUGGc -3'
miRNA:   3'- gGAaggUC-GUUGCCGa-GCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 32039 0.66 0.577298
Target:  5'- gUCUgCCGGCGGCGGCUCacggccgagcaaGGCGUcaaaUGGc -3'
miRNA:   3'- -GGAaGGUCGUUGCCGAG------------CCGCG----ACUa -5'
12402 3' -57.2 NC_003324.1 + 31316 0.66 0.577298
Target:  5'- gCggCCGGCGGC-GCU-GGCGCUGGc -3'
miRNA:   3'- gGaaGGUCGUUGcCGAgCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 32668 0.66 0.577298
Target:  5'- cCUUUCCAGCAAcgccaagucCGGuUUCGG-GCUGGa -3'
miRNA:   3'- -GGAAGGUCGUU---------GCC-GAGCCgCGACUa -5'
12402 3' -57.2 NC_003324.1 + 48179 0.66 0.566506
Target:  5'- gCUUCgAGCAGCaGCcacgUCGGCGC-GAUc -3'
miRNA:   3'- gGAAGgUCGUUGcCG----AGCCGCGaCUA- -5'
12402 3' -57.2 NC_003324.1 + 2506 0.67 0.533419
Target:  5'- gCCg-CCGGCGucgGCGGCuucaucaUCGGCGUUGGc -3'
miRNA:   3'- -GGaaGGUCGU---UGCCG-------AGCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 38331 0.68 0.472571
Target:  5'- aCCUgauGGCGAuCGGCauucCGGCGCUGAa -3'
miRNA:   3'- -GGAaggUCGUU-GCCGa---GCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 31097 0.68 0.471569
Target:  5'- uCCUUgCGGCAAUGcgcugcuGCUCGGCuGCUGc- -3'
miRNA:   3'- -GGAAgGUCGUUGC-------CGAGCCG-CGACua -5'
12402 3' -57.2 NC_003324.1 + 41314 0.68 0.460619
Target:  5'- cCUUUCCAucGCGaucacgaugucgaACGGCcucgaaaUCGGCGCUGGg -3'
miRNA:   3'- -GGAAGGU--CGU-------------UGCCG-------AGCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 27899 0.68 0.451761
Target:  5'- ---aCCAGCGGCuggaaggGGCUCGGCGCc--- -3'
miRNA:   3'- ggaaGGUCGUUG-------CCGAGCCGCGacua -5'
12402 3' -57.2 NC_003324.1 + 11152 0.69 0.442996
Target:  5'- gCCggUCUGGCGGcCGGCUCGcacaGCGUUGAg -3'
miRNA:   3'- -GGa-AGGUCGUU-GCCGAGC----CGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 14580 0.7 0.387146
Target:  5'- gCCUgCCGGCGcaaGCGGCcggCGGCGCa--- -3'
miRNA:   3'- -GGAaGGUCGU---UGCCGa--GCCGCGacua -5'
12402 3' -57.2 NC_003324.1 + 45299 0.72 0.283047
Target:  5'- gCUUCCAGUu-CGaGC-CGGCGCUGGg -3'
miRNA:   3'- gGAAGGUCGuuGC-CGaGCCGCGACUa -5'
12402 3' -57.2 NC_003324.1 + 54357 1.08 0.000753
Target:  5'- gCCUUCCAGCAACGGCUCGGCGCUGAUg -3'
miRNA:   3'- -GGAAGGUCGUUGCCGAGCCGCGACUA- -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.