miRNA display CGI


Results 1 - 20 of 32 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
24301 3' -54.8 NC_005263.2 + 38015 0.68 0.576547
Target:  5'- uCGCGaacauucUCGACGCgcuGCCcgCGUCGCu- -3'
miRNA:   3'- -GCGC-------AGCUGCGau-CGGaaGUAGCGuu -5'
24301 3' -54.8 NC_005263.2 + 37414 0.68 0.544488
Target:  5'- uCGCGUCG-CGC-GGCCguccUCGUCGUc- -3'
miRNA:   3'- -GCGCAGCuGCGaUCGGa---AGUAGCGuu -5'
24301 3' -54.8 NC_005263.2 + 26134 0.73 0.306401
Target:  5'- gCGgGUCGACGUUGGCgaUCAacugCGCAAa -3'
miRNA:   3'- -GCgCAGCUGCGAUCGgaAGUa---GCGUU- -5'
24301 3' -54.8 NC_005263.2 + 31534 0.75 0.2064
Target:  5'- aCGCGUCGcCGCcGGCCUuggCGUCGCu- -3'
miRNA:   3'- -GCGCAGCuGCGaUCGGAa--GUAGCGuu -5'
24301 3' -54.8 NC_005263.2 + 31297 1.06 0.001393
Target:  5'- gCGCGUCGACGCUAGCCUUCAUCGCAAc -3'
miRNA:   3'- -GCGCAGCUGCGAUCGGAAGUAGCGUU- -5'
24301 3' -54.8 NC_005263.2 + 33808 0.67 0.600026
Target:  5'- -aCGUCGACGUauucauCCUUCAUCGCu- -3'
miRNA:   3'- gcGCAGCUGCGauc---GGAAGUAGCGuu -5'
24301 3' -54.8 NC_005263.2 + 19963 0.66 0.645019
Target:  5'- uCGCGugcUCGGCGCUGGCag-CGU-GCAAg -3'
miRNA:   3'- -GCGC---AGCUGCGAUCGgaaGUAgCGUU- -5'
24301 3' -54.8 NC_005263.2 + 25801 0.67 0.633763
Target:  5'- aCGCccgCGACGCU-GCCaUUCGgguUCGCAAu -3'
miRNA:   3'- -GCGca-GCUGCGAuCGG-AAGU---AGCGUU- -5'
24301 3' -54.8 NC_005263.2 + 4224 0.67 0.611256
Target:  5'- gCGCGUCGACGCUcgaaaacgucGGCg-UCAggaugccgCGCAc -3'
miRNA:   3'- -GCGCAGCUGCGA----------UCGgaAGUa-------GCGUu -5'
24301 3' -54.8 NC_005263.2 + 9464 0.67 0.600026
Target:  5'- gGCGUCGAUGCgcgacgcGgCUUCAUuCGCGc -3'
miRNA:   3'- gCGCAGCUGCGau-----CgGAAGUA-GCGUu -5'
24301 3' -54.8 NC_005263.2 + 35461 0.68 0.577661
Target:  5'- aGCGUUGACaGCgggcGCCgaaaccgacgUCGUCGCAGu -3'
miRNA:   3'- gCGCAGCUG-CGau--CGGa---------AGUAGCGUU- -5'
24301 3' -54.8 NC_005263.2 + 18738 0.66 0.674201
Target:  5'- gCGCGUCGGCGCcggguuaccggcGCCUgcUCG-CGCAc -3'
miRNA:   3'- -GCGCAGCUGCGau----------CGGA--AGUaGCGUu -5'
24301 3' -54.8 NC_005263.2 + 20997 0.67 0.588825
Target:  5'- gCGCGUCGACGUgccGGCgUUUCAg-GCGAu -3'
miRNA:   3'- -GCGCAGCUGCGa--UCG-GAAGUagCGUU- -5'
24301 3' -54.8 NC_005263.2 + 9900 0.67 0.611256
Target:  5'- uCGuCGUCGGCGCgcggcgucgGGCCUUCuuccUCGUu- -3'
miRNA:   3'- -GC-GCAGCUGCGa--------UCGGAAGu---AGCGuu -5'
24301 3' -54.8 NC_005263.2 + 29723 0.66 0.700892
Target:  5'- gGcCGUCGcguCGCUGGCUgccuUUCAUgGCGAu -3'
miRNA:   3'- gC-GCAGCu--GCGAUCGG----AAGUAgCGUU- -5'
24301 3' -54.8 NC_005263.2 + 31462 0.68 0.565436
Target:  5'- aCGCGagcgccugcaaguUCGGCGcCUGGCCcgUCAgcggCGCGAg -3'
miRNA:   3'- -GCGC-------------AGCUGC-GAUCGGa-AGUa---GCGUU- -5'
24301 3' -54.8 NC_005263.2 + 43895 0.73 0.29871
Target:  5'- aGCGUCGACGCgcAGCUgagaUUCAggCGCAGa -3'
miRNA:   3'- gCGCAGCUGCGa-UCGG----AAGUa-GCGUU- -5'
24301 3' -54.8 NC_005263.2 + 16370 0.71 0.379654
Target:  5'- cCGCGUCGcucgGCggcggccugaugaaGCUGGCCggCAUCGCGGg -3'
miRNA:   3'- -GCGCAGC----UG--------------CGAUCGGaaGUAGCGUU- -5'
24301 3' -54.8 NC_005263.2 + 29592 0.7 0.459664
Target:  5'- gGUGUCGACGCc-GCCg--AUCGCGAg -3'
miRNA:   3'- gCGCAGCUGCGauCGGaagUAGCGUU- -5'
24301 3' -54.8 NC_005263.2 + 24787 0.69 0.511956
Target:  5'- gGCGUCGGCgGCUcGCCgggCGUCGgCGg -3'
miRNA:   3'- gCGCAGCUG-CGAuCGGaa-GUAGC-GUu -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.