miRNA display CGI


Results 1 - 20 of 40 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
24839 5' -55.5 NC_005284.1 + 11842 0.67 0.679626
Target:  5'- --uCGAGCagcGGCucgcguugcaGGCCGACUGG-CGCg -3'
miRNA:   3'- ccuGCUUGa--CCG----------CCGGCUGAUCaGCG- -5'
24839 5' -55.5 NC_005284.1 + 12967 0.69 0.550208
Target:  5'- uGGGCGAGCacccagcggaagUGGCGGC-GACaacaaccgcGUCGCg -3'
miRNA:   3'- -CCUGCUUG------------ACCGCCGgCUGau-------CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 49384 0.69 0.550208
Target:  5'- -cGCGAGCUGGCGcGCCGcACgGGcaaGCa -3'
miRNA:   3'- ccUGCUUGACCGC-CGGC-UGaUCag-CG- -5'
24839 5' -55.5 NC_005284.1 + 53882 0.69 0.550208
Target:  5'- cGGcCGGGaugGGCGGCCGuc--GUCGCu -3'
miRNA:   3'- -CCuGCUUga-CCGCCGGCugauCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 50288 0.69 0.560838
Target:  5'- -aGCGGAUcaaGCGGCCGACc-GUCGCc -3'
miRNA:   3'- ccUGCUUGac-CGCCGGCUGauCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 24650 0.69 0.560838
Target:  5'- cGGGCGAA--GGCGGUguuuuaUGAgUGGUCGUg -3'
miRNA:   3'- -CCUGCUUgaCCGCCG------GCUgAUCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 47805 0.69 0.582256
Target:  5'- cGGGCGAGCgcuUGGCGGCgcugCGAUgGGU-GCu -3'
miRNA:   3'- -CCUGCUUG---ACCGCCG----GCUGaUCAgCG- -5'
24839 5' -55.5 NC_005284.1 + 52399 0.68 0.593031
Target:  5'- cGAaGGACUGGaGG-CGACUAGUCGa -3'
miRNA:   3'- cCUgCUUGACCgCCgGCUGAUCAGCg -5'
24839 5' -55.5 NC_005284.1 + 10637 0.67 0.647207
Target:  5'- cGACGAGC-GGCGGCgaagcgcugcgCGAggaaCUGGUgCGCg -3'
miRNA:   3'- cCUGCUUGaCCGCCG-----------GCU----GAUCA-GCG- -5'
24839 5' -55.5 NC_005284.1 + 25516 0.7 0.518722
Target:  5'- cGGugGAAUcgGaGCGGCCGucgucgugcGCgcGUCGCu -3'
miRNA:   3'- -CCugCUUGa-C-CGCCGGC---------UGauCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 7019 0.7 0.46796
Target:  5'- cGGGCuGACUGGCGGCCGuuCcGGUUc- -3'
miRNA:   3'- -CCUGcUUGACCGCCGGCu-GaUCAGcg -5'
24839 5' -55.5 NC_005284.1 + 45643 0.7 0.46796
Target:  5'- gGGGCaGGCUGGCGGCuCGuc-GGUgCGCg -3'
miRNA:   3'- -CCUGcUUGACCGCCG-GCugaUCA-GCG- -5'
24839 5' -55.5 NC_005284.1 + 20631 0.76 0.228725
Target:  5'- gGGACGcuGCUauacaacGGCGGCCGACaucccaauGUCGCa -3'
miRNA:   3'- -CCUGCu-UGA-------CCGCCGGCUGau------CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 27776 0.74 0.317643
Target:  5'- uGACuGAUUGGCGGCCGuAUUGuGUUGCa -3'
miRNA:   3'- cCUGcUUGACCGCCGGC-UGAU-CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 19042 0.73 0.355341
Target:  5'- aGGGCGAuaUGGCGGUCGcgaagaaagucgaaAC-AGUCGCg -3'
miRNA:   3'- -CCUGCUugACCGCCGGC--------------UGaUCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 4440 0.72 0.377509
Target:  5'- aGGGCGAacuccaagcccgucuGCUGGaGGCCGagcaaaaGCUGGcUCGCg -3'
miRNA:   3'- -CCUGCU---------------UGACCgCCGGC-------UGAUC-AGCG- -5'
24839 5' -55.5 NC_005284.1 + 5954 0.72 0.383634
Target:  5'- cGGACGccacGGCUGGC-GCCGAUccgaucGUCGCg -3'
miRNA:   3'- -CCUGC----UUGACCGcCGGCUGau----CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 10406 0.71 0.419875
Target:  5'- aGGCGucGCgGGCGGCCGAUgacgCGCa -3'
miRNA:   3'- cCUGCu-UGaCCGCCGGCUGaucaGCG- -5'
24839 5' -55.5 NC_005284.1 + 21328 0.71 0.419875
Target:  5'- cGGGCG-ACUGGCGG--GGCgcguGUCGCg -3'
miRNA:   3'- -CCUGCuUGACCGCCggCUGau--CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 48788 0.71 0.458112
Target:  5'- uGGCGAACUGcgaucaaucgaGCuGcCCGACUGGUUGCc -3'
miRNA:   3'- cCUGCUUGAC-----------CGcC-GGCUGAUCAGCG- -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.