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
28429 5' -55.9 NC_005946.1 + 48284 0.66 0.863649
Target:  5'- -cCCUGAGGCCCGgguaagggugcUGGGGGuGCuugCAGg -3'
miRNA:   3'- guGGACUCUGGGU-----------GCCUCC-UGua-GUC- -5'
28429 5' -55.9 NC_005946.1 + 44428 0.66 0.855801
Target:  5'- gUACCUcucGAGGUUgACGGAGGACAggCAGc -3'
miRNA:   3'- -GUGGA---CUCUGGgUGCCUCCUGUa-GUC- -5'
28429 5' -55.9 NC_005946.1 + 73410 0.66 0.855801
Target:  5'- aCGCCaaGGGCuCCAaGGAGGACuacGUCAGg -3'
miRNA:   3'- -GUGGacUCUG-GGUgCCUCCUG---UAGUC- -5'
28429 5' -55.9 NC_005946.1 + 49253 0.66 0.855801
Target:  5'- aACCUGGaGCCCA-GGAaGGACAgggggcugUCAGa -3'
miRNA:   3'- gUGGACUcUGGGUgCCU-CCUGU--------AGUC- -5'
28429 5' -55.9 NC_005946.1 + 6309 0.66 0.839476
Target:  5'- uGCCUG-GACCCACGGcccgAGGuAC-UCGa -3'
miRNA:   3'- gUGGACuCUGGGUGCC----UCC-UGuAGUc -5'
28429 5' -55.9 NC_005946.1 + 61241 0.67 0.813529
Target:  5'- gGCCUGuGcCUgGCGGcGGACGUCGa -3'
miRNA:   3'- gUGGACuCuGGgUGCCuCCUGUAGUc -5'
28429 5' -55.9 NC_005946.1 + 62524 0.67 0.813529
Target:  5'- aGCCUGuAGACCa--GGAGGcCGUaCAGg -3'
miRNA:   3'- gUGGAC-UCUGGgugCCUCCuGUA-GUC- -5'
28429 5' -55.9 NC_005946.1 + 41470 0.67 0.766954
Target:  5'- uCACCcuUGGGACCC-UGGAGcGCAaUCAGg -3'
miRNA:   3'- -GUGG--ACUCUGGGuGCCUCcUGU-AGUC- -5'
28429 5' -55.9 NC_005946.1 + 14188 0.68 0.757224
Target:  5'- cCACCaUGAG---CGCGGAGGcCAUCAGg -3'
miRNA:   3'- -GUGG-ACUCuggGUGCCUCCuGUAGUC- -5'
28429 5' -55.9 NC_005946.1 + 59628 0.68 0.746387
Target:  5'- cCACCgcuccuccuccuaUGAGACCCACaGAGGcCAagAGg -3'
miRNA:   3'- -GUGG-------------ACUCUGGGUGcCUCCuGUagUC- -5'
28429 5' -55.9 NC_005946.1 + 13738 0.68 0.717242
Target:  5'- gGCCUGGGACCaggACGccGGGGACcgCAa -3'
miRNA:   3'- gUGGACUCUGGg--UGC--CUCCUGuaGUc -5'
28429 5' -55.9 NC_005946.1 + 100930 0.69 0.686419
Target:  5'- cCGCCggcaGAGACCCAgCaGAGGACAgcguguccUCGGu -3'
miRNA:   3'- -GUGGa---CUCUGGGU-GcCUCCUGU--------AGUC- -5'
28429 5' -55.9 NC_005946.1 + 71848 0.7 0.634227
Target:  5'- gGCCaaGAGGCCCGCGGgccagAGGACGggAGg -3'
miRNA:   3'- gUGGa-CUCUGGGUGCC-----UCCUGUagUC- -5'
28429 5' -55.9 NC_005946.1 + 41678 0.71 0.540811
Target:  5'- -cCCUGAGuCCCACGGGGccaGUCGGa -3'
miRNA:   3'- guGGACUCuGGGUGCCUCcugUAGUC- -5'
28429 5' -55.9 NC_005946.1 + 85026 0.72 0.530664
Target:  5'- aCACCUcauGGGCaUgAUGGAGGGCAUCAGg -3'
miRNA:   3'- -GUGGAc--UCUG-GgUGCCUCCUGUAGUC- -5'
28429 5' -55.9 NC_005946.1 + 31973 0.75 0.340243
Target:  5'- uGCCUGAGGaCCAUGGGGGugAUgAGa -3'
miRNA:   3'- gUGGACUCUgGGUGCCUCCugUAgUC- -5'
28429 5' -55.9 NC_005946.1 + 58062 0.76 0.324871
Target:  5'- --gCUGAGACCCACGG-GGAUAUaCGGc -3'
miRNA:   3'- gugGACUCUGGGUGCCuCCUGUA-GUC- -5'
28429 5' -55.9 NC_005946.1 + 82787 1.09 0.001962
Target:  5'- gCACCUGAGACCCACGGAGGACAUCAGg -3'
miRNA:   3'- -GUGGACUCUGGGUGCCUCCUGUAGUC- -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.