miRNA display CGI


Results 21 - 35 of 35 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
23253 3' -58.7 NC_005259.1 + 49584 0.69 0.425836
Target:  5'- aCCGG-CggGCGGggucagcaccUCGAccuCGGGCAGCUCa -3'
miRNA:   3'- -GGCUaGagCGCC----------AGCU---GCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 3298 0.7 0.40792
Target:  5'- gCCGGUCccucggcgagCGCuGcGUCGAcgugagcgcCGGGCAGCUCu -3'
miRNA:   3'- -GGCUAGa---------GCG-C-CAGCU---------GCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 42535 0.7 0.39914
Target:  5'- cCCGAUgggcacCGaGGU-GGCGGGCAGCUCg -3'
miRNA:   3'- -GGCUAga----GCgCCAgCUGCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 29883 0.7 0.39914
Target:  5'- cCCGAUgUCGaGGUCGGCaagcacaagGGGUGGCUg -3'
miRNA:   3'- -GGCUAgAGCgCCAGCUG---------CCCGUCGAg -5'
23253 3' -58.7 NC_005259.1 + 62839 0.7 0.390483
Target:  5'- -aGGUCgagcgCGCGGUUGACGaGCAGC-Cg -3'
miRNA:   3'- ggCUAGa----GCGCCAGCUGCcCGUCGaG- -5'
23253 3' -58.7 NC_005259.1 + 61028 0.7 0.37354
Target:  5'- cUCGGUggCGgcgaGGUCGAccgaCGGGCGGCUCa -3'
miRNA:   3'- -GGCUAgaGCg---CCAGCU----GCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 53896 0.71 0.357103
Target:  5'- cUCGAUUuccuuuuggUCGCGGaaacCGACGGGCAGaUCg -3'
miRNA:   3'- -GGCUAG---------AGCGCCa---GCUGCCCGUCgAG- -5'
23253 3' -58.7 NC_005259.1 + 19202 0.72 0.310897
Target:  5'- gCGAgCUCGUGGU--GCGGGCGGCg- -3'
miRNA:   3'- gGCUaGAGCGCCAgcUGCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 58921 0.72 0.289556
Target:  5'- gCGGUCUUGUcGUCGGCGGGC-GCg- -3'
miRNA:   3'- gGCUAGAGCGcCAGCUGCCCGuCGag -5'
23253 3' -58.7 NC_005259.1 + 58789 0.72 0.289556
Target:  5'- gCCGGUCgagGCGGugauugccUCGGCGGGCucgcgcuGCUCg -3'
miRNA:   3'- -GGCUAGag-CGCC--------AGCUGCCCGu------CGAG- -5'
23253 3' -58.7 NC_005259.1 + 17339 0.72 0.289556
Target:  5'- gCCGGUCaacgUCGCcGUCGAgGucGGCGGCUCg -3'
miRNA:   3'- -GGCUAG----AGCGcCAGCUgC--CCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 45185 0.74 0.221123
Target:  5'- gCCGAggUCagCGCGGUgaUGACGGGCgAGUUCg -3'
miRNA:   3'- -GGCU--AGa-GCGCCA--GCUGCCCG-UCGAG- -5'
23253 3' -58.7 NC_005259.1 + 41846 0.75 0.205016
Target:  5'- cUCGAcCUCGaCGGugucccacUCGACGGGCAGCa- -3'
miRNA:   3'- -GGCUaGAGC-GCC--------AGCUGCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 40119 0.75 0.185129
Target:  5'- aUGcgCUCGUGGaaUUGGCGGGCgAGCUCg -3'
miRNA:   3'- gGCuaGAGCGCC--AGCUGCCCG-UCGAG- -5'
23253 3' -58.7 NC_005259.1 + 36484 1.11 0.000563
Target:  5'- cCCGAUCUCGCGGUCGACGGGCAGCUCu -3'
miRNA:   3'- -GGCUAGAGCGCCAGCUGCCCGUCGAG- -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.