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
16360 3' -60.4 NC_004084.1 + 7505 0.66 0.511563
Target:  5'- uCGGCCgACGGGGAGAcugcgccCGaGUGGGuGCa -3'
miRNA:   3'- -GCUGGgUGCUCCUCUa------GC-CGCCCcUG- -5'
16360 3' -60.4 NC_004084.1 + 43739 0.66 0.501616
Target:  5'- gGGCCaauCGAGGAcc-CGGCcGGGACg -3'
miRNA:   3'- gCUGGgu-GCUCCUcuaGCCGcCCCUG- -5'
16360 3' -60.4 NC_004084.1 + 18562 0.66 0.501616
Target:  5'- gGGCCgACGGGGAGAUCGcGaCGGucuGCu -3'
miRNA:   3'- gCUGGgUGCUCCUCUAGC-C-GCCcc-UG- -5'
16360 3' -60.4 NC_004084.1 + 10456 0.66 0.491754
Target:  5'- -aGCCCGCGAGGcGAUCcaGGaCGGccugacGGACg -3'
miRNA:   3'- gcUGGGUGCUCCuCUAG--CC-GCC------CCUG- -5'
16360 3' -60.4 NC_004084.1 + 42324 0.66 0.491754
Target:  5'- aCGACCguCGGGacGAGAUCgacgaGGCGGcGGAa -3'
miRNA:   3'- -GCUGGguGCUC--CUCUAG-----CCGCC-CCUg -5'
16360 3' -60.4 NC_004084.1 + 5037 0.66 0.488812
Target:  5'- -cGCCCgACGAGGGccggaucuuguagcGGUCGGCGGaguaGACg -3'
miRNA:   3'- gcUGGG-UGCUCCU--------------CUAGCCGCCc---CUG- -5'
16360 3' -60.4 NC_004084.1 + 28629 0.66 0.462728
Target:  5'- ---gCCACGAcugGGAGAaCGGCuuccgcgaGGGGACg -3'
miRNA:   3'- gcugGGUGCU---CCUCUaGCCG--------CCCCUG- -5'
16360 3' -60.4 NC_004084.1 + 210 0.67 0.453253
Target:  5'- -aGCCCGCacGGccAUCGGCGGGGGa -3'
miRNA:   3'- gcUGGGUGcuCCucUAGCCGCCCCUg -5'
16360 3' -60.4 NC_004084.1 + 51015 0.67 0.443886
Target:  5'- aCGACCgAaaacccguacuuCGAGGAGGUCgcaGGCGGGa-- -3'
miRNA:   3'- -GCUGGgU------------GCUCCUCUAG---CCGCCCcug -5'
16360 3' -60.4 NC_004084.1 + 8949 0.67 0.407541
Target:  5'- aCGACUC-CGAGGAcagCGGCGacgaagacggcGGGACg -3'
miRNA:   3'- -GCUGGGuGCUCCUcuaGCCGC-----------CCCUG- -5'
16360 3' -60.4 NC_004084.1 + 4808 0.68 0.39875
Target:  5'- gCGGCagagaagGCGGGccGGAUCGGCGGGGAg -3'
miRNA:   3'- -GCUGgg-----UGCUCc-UCUAGCCGCCCCUg -5'
16360 3' -60.4 NC_004084.1 + 18884 0.68 0.390081
Target:  5'- uGGCCauCACGAGGAGAUCcuCGaGGACg -3'
miRNA:   3'- gCUGG--GUGCUCCUCUAGccGCcCCUG- -5'
16360 3' -60.4 NC_004084.1 + 18980 0.69 0.348628
Target:  5'- uCGGCCgGCGGGGAaGUCguaggucccgcuGGCGGGGu- -3'
miRNA:   3'- -GCUGGgUGCUCCUcUAG------------CCGCCCCug -5'
16360 3' -60.4 NC_004084.1 + 2920 0.69 0.340723
Target:  5'- gCGACCCGaagcugggaGAGGAGAUCc-CGGaGGACu -3'
miRNA:   3'- -GCUGGGUg--------CUCCUCUAGccGCC-CCUG- -5'
16360 3' -60.4 NC_004084.1 + 52573 0.69 0.317794
Target:  5'- aGAUCCACGAGGAcugcggcggcguGGUcCGGUGGGucgaGGCa -3'
miRNA:   3'- gCUGGGUGCUCCU------------CUA-GCCGCCC----CUG- -5'
16360 3' -60.4 NC_004084.1 + 19992 0.71 0.262402
Target:  5'- cCGACCCagcgaucaucgaACGGGGAauccGAUCGGCGcucgaGGACg -3'
miRNA:   3'- -GCUGGG------------UGCUCCU----CUAGCCGCc----CCUG- -5'
16360 3' -60.4 NC_004084.1 + 15201 0.71 0.256058
Target:  5'- gGACUCGCaccAGGAGAUCGGCGucucaccGGGCa -3'
miRNA:   3'- gCUGGGUGc--UCCUCUAGCCGCc------CCUG- -5'
16360 3' -60.4 NC_004084.1 + 29716 0.71 0.243748
Target:  5'- gCGGCCguuCGAGGAGAUCGucCGGGcGACc -3'
miRNA:   3'- -GCUGGgu-GCUCCUCUAGCc-GCCC-CUG- -5'
16360 3' -60.4 NC_004084.1 + 21748 0.72 0.22621
Target:  5'- aCGaACCCugGAcgguuccacGGGGAUCGGCGGcaucGACg -3'
miRNA:   3'- -GC-UGGGugCU---------CCUCUAGCCGCCc---CUG- -5'
16360 3' -60.4 NC_004084.1 + 49852 0.72 0.22621
Target:  5'- uCGACgUCGCGAGcGAGAUcCGGCGaguccugcGGGACg -3'
miRNA:   3'- -GCUG-GGUGCUC-CUCUA-GCCGC--------CCCUG- -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.