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
16498 5' -51.9 NC_004084.1 + 21342 0.66 0.899882
Target:  5'- cGGuacuGACGaggAgGACCUCgacaCCGAGAa -3'
miRNA:   3'- aCCuu--CUGCa--UgCUGGAGaa--GGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 25245 0.66 0.899882
Target:  5'- -cGggGGCGaACGGCCUCcuugCgCGGGAg -3'
miRNA:   3'- acCuuCUGCaUGCUGGAGaa--G-GCUCU- -5'
16498 5' -51.9 NC_004084.1 + 42183 0.66 0.885387
Target:  5'- aUGGAggAGACGUACGA-CUCcgUCGAcGAa -3'
miRNA:   3'- -ACCU--UCUGCAUGCUgGAGaaGGCU-CU- -5'
16498 5' -51.9 NC_004084.1 + 1289 0.66 0.885387
Target:  5'- aGGGAGACG-GCGACa----CCGAGGa -3'
miRNA:   3'- aCCUUCUGCaUGCUGgagaaGGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 10764 0.67 0.869831
Target:  5'- aGuGggGGCGUcgcCGACCUCgacgCCGAa- -3'
miRNA:   3'- aC-CuuCUGCAu--GCUGGAGaa--GGCUcu -5'
16498 5' -51.9 NC_004084.1 + 21939 0.67 0.853265
Target:  5'- aGGAAauugucGGCGUccggACGACgUCUccgCCGAGAu -3'
miRNA:   3'- aCCUU------CUGCA----UGCUGgAGAa--GGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 53424 0.67 0.853265
Target:  5'- cGGAucGACucgagcgACGAaagguCCUCUUCCGAGGc -3'
miRNA:   3'- aCCUu-CUGca-----UGCU-----GGAGAAGGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 2543 0.67 0.844623
Target:  5'- cGGguGGCcgcUGCgGACCUCUUCCGcGAa -3'
miRNA:   3'- aCCuuCUGc--AUG-CUGGAGAAGGCuCU- -5'
16498 5' -51.9 NC_004084.1 + 43967 0.68 0.835751
Target:  5'- gGGAGGGCGagggaACGACgCUCUaCCGcGAa -3'
miRNA:   3'- aCCUUCUGCa----UGCUG-GAGAaGGCuCU- -5'
16498 5' -51.9 NC_004084.1 + 55435 0.68 0.798174
Target:  5'- cUGGcucAGugGUGCGAUCUaCUUCC-AGAu -3'
miRNA:   3'- -ACCu--UCugCAUGCUGGA-GAAGGcUCU- -5'
16498 5' -51.9 NC_004084.1 + 4961 0.68 0.788308
Target:  5'- cGGGAGACG-ACGACC-Ca--CGAGGa -3'
miRNA:   3'- aCCUUCUGCaUGCUGGaGaagGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 27476 0.69 0.768089
Target:  5'- -aGAacGGACGUACGACCaCUU-CGAGAc -3'
miRNA:   3'- acCU--UCUGCAUGCUGGaGAAgGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 115 0.7 0.715241
Target:  5'- gUGGAuguGGACGgaggaGACCUCgUCCGcAGAg -3'
miRNA:   3'- -ACCU---UCUGCaug--CUGGAGaAGGC-UCU- -5'
16498 5' -51.9 NC_004084.1 + 23088 0.7 0.704372
Target:  5'- aGGuGGACGUcgGCGACCUCggauagccagCCGAcGAa -3'
miRNA:   3'- aCCuUCUGCA--UGCUGGAGaa--------GGCU-CU- -5'
16498 5' -51.9 NC_004084.1 + 31652 0.7 0.682429
Target:  5'- gUGGggGAUGauccGCGACCUCUcgauggccgUCGGGAa -3'
miRNA:   3'- -ACCuuCUGCa---UGCUGGAGAa--------GGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 27320 0.71 0.638042
Target:  5'- cUGGc-GACGUACGuCCUCUUUuaCGAGGg -3'
miRNA:   3'- -ACCuuCUGCAUGCuGGAGAAG--GCUCU- -5'
16498 5' -51.9 NC_004084.1 + 57467 0.73 0.517311
Target:  5'- cGcGAGAUGgcccGCGACCUCcUCCGGGAg -3'
miRNA:   3'- aCcUUCUGCa---UGCUGGAGaAGGCUCU- -5'
16498 5' -51.9 NC_004084.1 + 56545 1.09 0.00253
Target:  5'- uUGGAAGACGUACGACCUCUUCCGAGAc -3'
miRNA:   3'- -ACCUUCUGCAUGCUGGAGAAGGCUCU- -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.