miRNA display CGI


Results 1 - 20 of 27 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
16367 3' -50.3 NC_004084.1 + 13475 0.66 0.967002
Target:  5'- aCGccGUucUCGUCgACGAacgUCAUCGUCa -3'
miRNA:   3'- -GCuuCA--GGCAGgUGCUa--AGUAGCAGc -5'
16367 3' -50.3 NC_004084.1 + 11238 0.66 0.967002
Target:  5'- aGAAG-CCGUCC-CGGUcagCAUCccaGUCGc -3'
miRNA:   3'- gCUUCaGGCAGGuGCUAa--GUAG---CAGC- -5'
16367 3' -50.3 NC_004084.1 + 53867 0.66 0.967002
Target:  5'- cCGGAGUUCGUUUACGGUgagcaggccugCAUCGcCu -3'
miRNA:   3'- -GCUUCAGGCAGGUGCUAa----------GUAGCaGc -5'
16367 3' -50.3 NC_004084.1 + 35332 0.66 0.967002
Target:  5'- cCGAGGUCgccgaCGUCCACcucgUCG-CGUCGc -3'
miRNA:   3'- -GCUUCAG-----GCAGGUGcua-AGUaGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 35392 0.66 0.963469
Target:  5'- uCGAAGcUCCaGaUCACGAccgacgggUCAUCGUCGu -3'
miRNA:   3'- -GCUUC-AGG-CaGGUGCUa-------AGUAGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 20356 0.66 0.959679
Target:  5'- aCGAGGUUCGUaacCCuuGAUUCGcgCGUUGu -3'
miRNA:   3'- -GCUUCAGGCA---GGugCUAAGUa-GCAGC- -5'
16367 3' -50.3 NC_004084.1 + 49736 0.66 0.959679
Target:  5'- -cGAGUCCucgGUCCACug--CGUCGUCa -3'
miRNA:   3'- gcUUCAGG---CAGGUGcuaaGUAGCAGc -5'
16367 3' -50.3 NC_004084.1 + 5659 0.66 0.951308
Target:  5'- uCGAAGUCCGcaucguagUCCcaGCGGag-GUCGUCGa -3'
miRNA:   3'- -GCUUCAGGC--------AGG--UGCUaagUAGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 17486 0.66 0.946715
Target:  5'- gCGAcGUCCGUCCAgccCGGUagcugcUCcUCGUCc -3'
miRNA:   3'- -GCUuCAGGCAGGU---GCUA------AGuAGCAGc -5'
16367 3' -50.3 NC_004084.1 + 17448 0.66 0.946715
Target:  5'- -cGGGUUCGUCCGgGA-UCGUCGaCGg -3'
miRNA:   3'- gcUUCAGGCAGGUgCUaAGUAGCaGC- -5'
16367 3' -50.3 NC_004084.1 + 21818 0.66 0.946715
Target:  5'- ----cUCCGUCCGCGGUUCAcagagaacUCGcCa -3'
miRNA:   3'- gcuucAGGCAGGUGCUAAGU--------AGCaGc -5'
16367 3' -50.3 NC_004084.1 + 10008 0.67 0.941846
Target:  5'- aCGAAGaucUCCGagauggcggCCACGAUgCcgCGUCGa -3'
miRNA:   3'- -GCUUC---AGGCa--------GGUGCUAaGuaGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 2501 0.67 0.936698
Target:  5'- uGAAGUCCaGucggcccacuccUCCgGCGGaUCGUCGUCGc -3'
miRNA:   3'- gCUUCAGG-C------------AGG-UGCUaAGUAGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 18682 0.67 0.929583
Target:  5'- uCGGAGUCCuccucgucauccucGUCgACGg--CGUCGUCGc -3'
miRNA:   3'- -GCUUCAGG--------------CAGgUGCuaaGUAGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 41064 0.67 0.919558
Target:  5'- aGAAG-CgGUCCGCGAguaCGUCGaCGa -3'
miRNA:   3'- gCUUCaGgCAGGUGCUaa-GUAGCaGC- -5'
16367 3' -50.3 NC_004084.1 + 22734 0.68 0.90672
Target:  5'- aCGAAGUCCGcCCAgCGGUacgaggaCAUCGaCGa -3'
miRNA:   3'- -GCUUCAGGCaGGU-GCUAa------GUAGCaGC- -5'
16367 3' -50.3 NC_004084.1 + 56583 0.68 0.89277
Target:  5'- aCGAAGaguucaCCGUCCGCaacugCAUCGUCu -3'
miRNA:   3'- -GCUUCa-----GGCAGGUGcuaa-GUAGCAGc -5'
16367 3' -50.3 NC_004084.1 + 39394 0.68 0.885387
Target:  5'- uCGAAGUCCaGUUCGagcuCGGcgUCGUCGUCc -3'
miRNA:   3'- -GCUUCAGG-CAGGU----GCUa-AGUAGCAGc -5'
16367 3' -50.3 NC_004084.1 + 58119 0.69 0.877739
Target:  5'- uCGGGuUCuCGUCgGCGGU-CGUCGUCGa -3'
miRNA:   3'- -GCUUcAG-GCAGgUGCUAaGUAGCAGC- -5'
16367 3' -50.3 NC_004084.1 + 28164 0.69 0.869831
Target:  5'- gGAauAGUCCGUCCuCGGccugUUCGaCGUCGc -3'
miRNA:   3'- gCU--UCAGGCAGGuGCU----AAGUaGCAGC- -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.