miRNA display CGI


Results 1 - 20 of 22 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
18799 5' -58.1 NC_004683.1 + 34351 0.66 0.574883
Target:  5'- aGCCgUUCGGCuUCGcCgugCCAGCCGa- -3'
miRNA:   3'- -UGG-AAGCCGcAGCuGaa-GGUCGGCca -5'
18799 5' -58.1 NC_004683.1 + 32568 0.66 0.564263
Target:  5'- cGCgUUCGGCGUCaACggggugCCAGCCu-- -3'
miRNA:   3'- -UGgAAGCCGCAGcUGaa----GGUCGGcca -5'
18799 5' -58.1 NC_004683.1 + 51063 0.66 0.553695
Target:  5'- gACCccUCGGCGccuuggCGGCgggUgCGGCCGGa -3'
miRNA:   3'- -UGGa-AGCCGCa-----GCUGa--AgGUCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 620 0.66 0.553695
Target:  5'- gGCCUgaacgcgcuguUCGGCaUCGACUcgaaUGGCCGGUc -3'
miRNA:   3'- -UGGA-----------AGCCGcAGCUGAag--GUCGGCCA- -5'
18799 5' -58.1 NC_004683.1 + 55873 0.66 0.543187
Target:  5'- cGCCcUUGGUGUCGugUUUguGCCa-- -3'
miRNA:   3'- -UGGaAGCCGCAGCugAAGguCGGcca -5'
18799 5' -58.1 NC_004683.1 + 13019 0.66 0.543187
Target:  5'- cGCCggUGGCcccggCGACUUCCGGgUGGg -3'
miRNA:   3'- -UGGaaGCCGca---GCUGAAGGUCgGCCa -5'
18799 5' -58.1 NC_004683.1 + 40297 0.67 0.532746
Target:  5'- gGCCUgcUCGGCGUCGuagg-CAGcCCGGg -3'
miRNA:   3'- -UGGA--AGCCGCAGCugaagGUC-GGCCa -5'
18799 5' -58.1 NC_004683.1 + 52151 0.67 0.522377
Target:  5'- cGCCUcCcGCGUCGACgaUCAGCCaGGg -3'
miRNA:   3'- -UGGAaGcCGCAGCUGaaGGUCGG-CCa -5'
18799 5' -58.1 NC_004683.1 + 41274 0.67 0.512087
Target:  5'- gGCCUUCGccGCGUCGGCgggugUCCAuaUCGGa -3'
miRNA:   3'- -UGGAAGC--CGCAGCUGa----AGGUc-GGCCa -5'
18799 5' -58.1 NC_004683.1 + 52443 0.67 0.501882
Target:  5'- gGCCUUCGG-GUUGAC--CCGGCCcaGGg -3'
miRNA:   3'- -UGGAAGCCgCAGCUGaaGGUCGG--CCa -5'
18799 5' -58.1 NC_004683.1 + 8961 0.67 0.481747
Target:  5'- uGCC--CGGCGaggcCGACggauuagCCAGCCGGUc -3'
miRNA:   3'- -UGGaaGCCGCa---GCUGaa-----GGUCGGCCA- -5'
18799 5' -58.1 NC_004683.1 + 16583 0.68 0.452304
Target:  5'- aGCCUaUGGCGUCGAUgugcgggUCgaccuguggCGGCCGGg -3'
miRNA:   3'- -UGGAaGCCGCAGCUGa------AG---------GUCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 44957 0.68 0.45134
Target:  5'- aACCUccguguaUCGGCacUCGGCcUCCAGgCCGGg -3'
miRNA:   3'- -UGGA-------AGCCGc-AGCUGaAGGUC-GGCCa -5'
18799 5' -58.1 NC_004683.1 + 25873 0.68 0.44271
Target:  5'- gGCUgcggcUCGGCGUCGAgUUC--GCCGGg -3'
miRNA:   3'- -UGGa----AGCCGCAGCUgAAGguCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 33931 0.69 0.405522
Target:  5'- gUCUUCGcgggccGCGUCGGCUggaUCGGCCGGc -3'
miRNA:   3'- uGGAAGC------CGCAGCUGAa--GGUCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 31522 0.69 0.396536
Target:  5'- gGCCgacauggugUCGGCGUCGGCcacgCCGGCgagcuCGGUu -3'
miRNA:   3'- -UGGa--------AGCCGCAGCUGaa--GGUCG-----GCCA- -5'
18799 5' -58.1 NC_004683.1 + 9066 0.69 0.378955
Target:  5'- gAUCUucUCGGCGUCGA---CCGGCUGGc -3'
miRNA:   3'- -UGGA--AGCCGCAGCUgaaGGUCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 447 0.71 0.321656
Target:  5'- gGCCcgcacCGGUGUCGACUgucgaggucUCCAGCCGc- -3'
miRNA:   3'- -UGGaa---GCCGCAGCUGA---------AGGUCGGCca -5'
18799 5' -58.1 NC_004683.1 + 12991 0.71 0.321656
Target:  5'- gGCUgcgCGaGCG-CGGCUUCCuGCCGGg -3'
miRNA:   3'- -UGGaa-GC-CGCaGCUGAAGGuCGGCCa -5'
18799 5' -58.1 NC_004683.1 + 162 0.74 0.184405
Target:  5'- cGCC-UCGGCGUCGACaccCCAgcagccGCCGGUu -3'
miRNA:   3'- -UGGaAGCCGCAGCUGaa-GGU------CGGCCA- -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.