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
21217 3' -55.1 NC_004778.3 + 74833 0.66 0.932059
Target:  5'- uGCGCCCguagucGGUGGCGcCGAUaGACUUc- -3'
miRNA:   3'- -CGCGGG------UCAUCGCuGCUGcUUGAGca -5'
21217 3' -55.1 NC_004778.3 + 68068 0.66 0.921333
Target:  5'- gGCGCUC---AGCGACGACGcGC-CGg -3'
miRNA:   3'- -CGCGGGucaUCGCUGCUGCuUGaGCa -5'
21217 3' -55.1 NC_004778.3 + 128518 0.66 0.916191
Target:  5'- aGCGCCCAGUua-GACGAaauugcacgcgaaaaGGACaUCGUc -3'
miRNA:   3'- -CGCGGGUCAucgCUGCUg--------------CUUG-AGCA- -5'
21217 3' -55.1 NC_004778.3 + 92592 0.66 0.915607
Target:  5'- cGCGCCCAuugacGUuauugAGCGA-GuCGGGCUCGa -3'
miRNA:   3'- -CGCGGGU-----CA-----UCGCUgCuGCUUGAGCa -5'
21217 3' -55.1 NC_004778.3 + 103377 0.66 0.90964
Target:  5'- uCGCCUuuGGUGGCGcUGGCGccCUCGUc -3'
miRNA:   3'- cGCGGG--UCAUCGCuGCUGCuuGAGCA- -5'
21217 3' -55.1 NC_004778.3 + 48713 0.66 0.903433
Target:  5'- uGCGUgUuguAGUAgccGCGGCGACGggUUCGc -3'
miRNA:   3'- -CGCGgG---UCAU---CGCUGCUGCuuGAGCa -5'
21217 3' -55.1 NC_004778.3 + 52095 0.67 0.896989
Target:  5'- cGCGCCacaAGgAG-GACGACGAggaggACUCGc -3'
miRNA:   3'- -CGCGGg--UCaUCgCUGCUGCU-----UGAGCa -5'
21217 3' -55.1 NC_004778.3 + 72426 0.67 0.876268
Target:  5'- uGCGCCacaaAGUGuaGGCGGCaAACUCGc -3'
miRNA:   3'- -CGCGGg---UCAUcgCUGCUGcUUGAGCa -5'
21217 3' -55.1 NC_004778.3 + 90695 0.67 0.876268
Target:  5'- cGUGCCCAGccAGCGGCcgguACGAA-UCGUa -3'
miRNA:   3'- -CGCGGGUCa-UCGCUGc---UGCUUgAGCA- -5'
21217 3' -55.1 NC_004778.3 + 64161 0.67 0.876268
Target:  5'- cGCGCCC-GUGGC--CGcCGAGCUUGa -3'
miRNA:   3'- -CGCGGGuCAUCGcuGCuGCUUGAGCa -5'
21217 3' -55.1 NC_004778.3 + 10253 0.68 0.829023
Target:  5'- uGCGUgUGGcuUGGCGugGACGGGCcCGUg -3'
miRNA:   3'- -CGCGgGUC--AUCGCugCUGCUUGaGCA- -5'
21217 3' -55.1 NC_004778.3 + 11909 0.68 0.820471
Target:  5'- -aGCCCauGGUGGCGAgGACGAccGCUa-- -3'
miRNA:   3'- cgCGGG--UCAUCGCUgCUGCU--UGAgca -5'
21217 3' -55.1 NC_004778.3 + 49158 0.69 0.784608
Target:  5'- aCGCCCAGUcG-GGCGAUGAGCUg-- -3'
miRNA:   3'- cGCGGGUCAuCgCUGCUGCUUGAgca -5'
21217 3' -55.1 NC_004778.3 + 44054 0.69 0.774332
Target:  5'- uCGCCCAcgcgggcGUuuGCGGCGGCGAugUCa- -3'
miRNA:   3'- cGCGGGU-------CAu-CGCUGCUGCUugAGca -5'
21217 3' -55.1 NC_004778.3 + 112484 0.7 0.736726
Target:  5'- cGCGCC----AGCGGcCGAUGAACUCGa -3'
miRNA:   3'- -CGCGGgucaUCGCU-GCUGCUUGAGCa -5'
21217 3' -55.1 NC_004778.3 + 63410 0.7 0.736726
Target:  5'- uCGUCCAGUuuuugcuuuuugGGCGACGGCGAug-CGUc -3'
miRNA:   3'- cGCGGGUCA------------UCGCUGCUGCUugaGCA- -5'
21217 3' -55.1 NC_004778.3 + 104191 0.71 0.696703
Target:  5'- uGCGCUgGGaGGCgGGCGACGAcccgGCUCGc -3'
miRNA:   3'- -CGCGGgUCaUCG-CUGCUGCU----UGAGCa -5'
21217 3' -55.1 NC_004778.3 + 109970 0.73 0.573578
Target:  5'- cGCGCCCAuuacGU-GCGACGACaAGCUgGUg -3'
miRNA:   3'- -CGCGGGU----CAuCGCUGCUGcUUGAgCA- -5'
21217 3' -55.1 NC_004778.3 + 39403 0.75 0.474822
Target:  5'- gGgGCCCGGUGcUGGCGACGAAUUUGa -3'
miRNA:   3'- -CgCGGGUCAUcGCUGCUGCUUGAGCa -5'
21217 3' -55.1 NC_004778.3 + 113355 0.75 0.465391
Target:  5'- aCGCCCgaguugaaAGUGGCGACGcGCGGGCUUGc -3'
miRNA:   3'- cGCGGG--------UCAUCGCUGC-UGCUUGAGCa -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.