miRNA display CGI


Results 1 - 16 of 16 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
12553 5' -55.5 NC_003345.1 + 33848 0.66 0.797954
Target:  5'- aCG-GGUCGGUCGGCaucccguacucGGCggCGAGGu- -3'
miRNA:   3'- -GCgCCAGUCAGUCG-----------CCGuaGCUCUug -5'
12553 5' -55.5 NC_003345.1 + 24477 0.66 0.797954
Target:  5'- -uUGGUguGUCccGGUGaGCAUCGAGGAg -3'
miRNA:   3'- gcGCCAguCAG--UCGC-CGUAGCUCUUg -5'
12553 5' -55.5 NC_003345.1 + 45440 0.67 0.759004
Target:  5'- gGCGG-CGGuUCAGCucGGUAUCGuuAGCg -3'
miRNA:   3'- gCGCCaGUC-AGUCG--CCGUAGCucUUG- -5'
12553 5' -55.5 NC_003345.1 + 29667 0.67 0.748931
Target:  5'- aCGCGGcUUcGUCGGCGuagucuucGCuAUCGGGAACc -3'
miRNA:   3'- -GCGCC-AGuCAGUCGC--------CG-UAGCUCUUG- -5'
12553 5' -55.5 NC_003345.1 + 20985 0.67 0.738745
Target:  5'- aGCGG-CGGUagcaacaacaaCAGCGGCGcgagcggcgacuUCGAGGAg -3'
miRNA:   3'- gCGCCaGUCA-----------GUCGCCGU------------AGCUCUUg -5'
12553 5' -55.5 NC_003345.1 + 67288 0.67 0.738745
Target:  5'- gGCGGUUuugaccUCGGCGGCAaCGAaAGCg -3'
miRNA:   3'- gCGCCAGuc----AGUCGCCGUaGCUcUUG- -5'
12553 5' -55.5 NC_003345.1 + 24193 0.67 0.728456
Target:  5'- uCGCGGUacucggAGUCAGCGGgaaCGUCGAa--- -3'
miRNA:   3'- -GCGCCAg-----UCAGUCGCC---GUAGCUcuug -5'
12553 5' -55.5 NC_003345.1 + 9767 0.67 0.728456
Target:  5'- -uCGGUCGGUCGGCguuguucacGGCGacUCGuGGGCu -3'
miRNA:   3'- gcGCCAGUCAGUCG---------CCGU--AGCuCUUG- -5'
12553 5' -55.5 NC_003345.1 + 15927 0.67 0.718077
Target:  5'- aGaCGGUCAGUUguAGCGGaaCAgggCGAGAAa -3'
miRNA:   3'- gC-GCCAGUCAG--UCGCC--GUa--GCUCUUg -5'
12553 5' -55.5 NC_003345.1 + 12332 0.7 0.537326
Target:  5'- -uUGGUCGGUCAGgucaGGCGUCGGGu-- -3'
miRNA:   3'- gcGCCAGUCAGUCg---CCGUAGCUCuug -5'
12553 5' -55.5 NC_003345.1 + 27294 0.72 0.45578
Target:  5'- gGCGGUCgaaucguccGGUCGcaaguucGUGGUAUCGAGGAUg -3'
miRNA:   3'- gCGCCAG---------UCAGU-------CGCCGUAGCUCUUG- -5'
12553 5' -55.5 NC_003345.1 + 24572 0.72 0.418951
Target:  5'- aGCGGUCGuccUCGGCGGCAggacgcCGGGAGg -3'
miRNA:   3'- gCGCCAGUc--AGUCGCCGUa-----GCUCUUg -5'
12553 5' -55.5 NC_003345.1 + 18679 0.75 0.310259
Target:  5'- uGCGGUCGGUgGGaUGGCAU-GGGAGCc -3'
miRNA:   3'- gCGCCAGUCAgUC-GCCGUAgCUCUUG- -5'
12553 5' -55.5 NC_003345.1 + 2341 0.75 0.288434
Target:  5'- gGCGGUgUAGUCGGUGGCGagGaAGAACg -3'
miRNA:   3'- gCGCCA-GUCAGUCGCCGUagC-UCUUG- -5'
12553 5' -55.5 NC_003345.1 + 61601 0.76 0.267834
Target:  5'- --aGGUCGGUCAGCGGC-UUGAGGu- -3'
miRNA:   3'- gcgCCAGUCAGUCGCCGuAGCUCUug -5'
12553 5' -55.5 NC_003345.1 + 37751 1.07 0.001881
Target:  5'- aGCGGUCAGUCAGCGGCAUCGAGAACc -3'
miRNA:   3'- gCGCCAGUCAGUCGCCGUAGCUCUUG- -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.