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
18867 5' -56.5 NC_004683.1 + 11016 0.66 0.666001
Target:  5'- gGCCCuuGGCCACCGAgUGauucgugcacUC-CGGGc -3'
miRNA:   3'- gCGGGu-UCGGUGGCUgAU----------AGaGCCUa -5'
18867 5' -56.5 NC_004683.1 + 19952 0.66 0.655068
Target:  5'- aGCCCGAGCgGgCGACg----CGGAUu -3'
miRNA:   3'- gCGGGUUCGgUgGCUGauagaGCCUA- -5'
18867 5' -56.5 NC_004683.1 + 37224 0.66 0.644114
Target:  5'- gGCCCGuGUUugCGAUcGUCUCGGc- -3'
miRNA:   3'- gCGGGUuCGGugGCUGaUAGAGCCua -5'
18867 5' -56.5 NC_004683.1 + 12201 0.66 0.644114
Target:  5'- gGCCCGccGCCGCCGGgUcguagguuuggAUCUCGGc- -3'
miRNA:   3'- gCGGGUu-CGGUGGCUgA-----------UAGAGCCua -5'
18867 5' -56.5 NC_004683.1 + 4742 0.66 0.644114
Target:  5'- gGCCCGGGUCGCCGAgg----CGGAc -3'
miRNA:   3'- gCGGGUUCGGUGGCUgauagaGCCUa -5'
18867 5' -56.5 NC_004683.1 + 49575 0.66 0.633149
Target:  5'- gCGCCC-GGCCGCCGAauccagGUCgagcgccucCGGGUg -3'
miRNA:   3'- -GCGGGuUCGGUGGCUga----UAGa--------GCCUA- -5'
18867 5' -56.5 NC_004683.1 + 53097 0.66 0.633149
Target:  5'- aCGcCCCGAGCCAUCGGCcggggcguucGUCgUUGGAg -3'
miRNA:   3'- -GC-GGGUUCGGUGGCUGa---------UAG-AGCCUa -5'
18867 5' -56.5 NC_004683.1 + 50243 0.66 0.622183
Target:  5'- cCGCCCGGGCCGUCGACUuccaugacGUCaUCGa-- -3'
miRNA:   3'- -GCGGGUUCGGUGGCUGA--------UAG-AGCcua -5'
18867 5' -56.5 NC_004683.1 + 48399 0.66 0.611226
Target:  5'- aGCgCCGAGCCACU-----UCUCGGAc -3'
miRNA:   3'- gCG-GGUUCGGUGGcugauAGAGCCUa -5'
18867 5' -56.5 NC_004683.1 + 34564 0.67 0.589375
Target:  5'- uCGUCCAAGUCGCCGgaguugagGCUGUCgaCGGu- -3'
miRNA:   3'- -GCGGGUUCGGUGGC--------UGAUAGa-GCCua -5'
18867 5' -56.5 NC_004683.1 + 43630 0.67 0.556887
Target:  5'- uCGCCCAAGgCACCcgaGACgAUCUCGc-- -3'
miRNA:   3'- -GCGGGUUCgGUGG---CUGaUAGAGCcua -5'
18867 5' -56.5 NC_004683.1 + 36890 0.67 0.556887
Target:  5'- cCGCCgAGGCCACCaucGACUGugcgaaccUCgUCGGGc -3'
miRNA:   3'- -GCGGgUUCGGUGG---CUGAU--------AG-AGCCUa -5'
18867 5' -56.5 NC_004683.1 + 40353 0.68 0.524932
Target:  5'- aCGCCuCGGGCCugACCGACgccgGUCUCa--- -3'
miRNA:   3'- -GCGG-GUUCGG--UGGCUGa---UAGAGccua -5'
18867 5' -56.5 NC_004683.1 + 27573 0.68 0.493698
Target:  5'- cCGCCUugcCCGCCGACgUGUC-CGGGUa -3'
miRNA:   3'- -GCGGGuucGGUGGCUG-AUAGaGCCUA- -5'
18867 5' -56.5 NC_004683.1 + 24643 0.69 0.463342
Target:  5'- gCGCCCAGGCCGCCGAg---UUCGc-- -3'
miRNA:   3'- -GCGGGUUCGGUGGCUgauaGAGCcua -5'
18867 5' -56.5 NC_004683.1 + 43958 0.69 0.463342
Target:  5'- uCGCCgGGGCCACCGGCg--CcCGGc- -3'
miRNA:   3'- -GCGGgUUCGGUGGCUGauaGaGCCua -5'
18867 5' -56.5 NC_004683.1 + 42461 0.7 0.378694
Target:  5'- uCGCCCAGGUCGCCGuCagcCUCGGu- -3'
miRNA:   3'- -GCGGGUUCGGUGGCuGauaGAGCCua -5'
18867 5' -56.5 NC_004683.1 + 52602 0.71 0.336367
Target:  5'- gGCCCGAGCCACCcGAgUA-CUgCGGGc -3'
miRNA:   3'- gCGGGUUCGGUGG-CUgAUaGA-GCCUa -5'
18867 5' -56.5 NC_004683.1 + 52754 0.72 0.297595
Target:  5'- cCGgCCAcGUCACCGGCccgAUCUCGGGg -3'
miRNA:   3'- -GCgGGUuCGGUGGCUGa--UAGAGCCUa -5'
18867 5' -56.5 NC_004683.1 + 37083 0.73 0.262382
Target:  5'- uGCCCAGGUCAUCGAUg--CUCGGc- -3'
miRNA:   3'- gCGGGUUCGGUGGCUGauaGAGCCua -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.