miRNA display CGI


Results 1 - 20 of 24 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
28104 5' -56.2 NC_005887.1 + 14792 0.66 0.600385
Target:  5'- uUCUcgaUCGUCGCcuGCgCGAUCGCCgCGc -3'
miRNA:   3'- cAGA---AGUAGCG--CGaGCUAGCGGgGCu -5'
28104 5' -56.2 NC_005887.1 + 5487 0.66 0.600385
Target:  5'- ---gUgGUCGCGC-CGGUCGCUgCGGc -3'
miRNA:   3'- cagaAgUAGCGCGaGCUAGCGGgGCU- -5'
28104 5' -56.2 NC_005887.1 + 16244 0.66 0.577205
Target:  5'- cUCUUCGcgcagguUCGC-CUCGAUCGCUCgCGc -3'
miRNA:   3'- cAGAAGU-------AGCGcGAGCUAGCGGG-GCu -5'
28104 5' -56.2 NC_005887.1 + 5901 0.67 0.556407
Target:  5'- ----aCGUCGaGCUCGGUCGCCaggCGAu -3'
miRNA:   3'- cagaaGUAGCgCGAGCUAGCGGg--GCU- -5'
28104 5' -56.2 NC_005887.1 + 33892 0.67 0.545546
Target:  5'- cGUCgccguauuggUCGUCGUGCUCGGgagugaagccuUCGCgUCGAc -3'
miRNA:   3'- -CAGa---------AGUAGCGCGAGCU-----------AGCGgGGCU- -5'
28104 5' -56.2 NC_005887.1 + 33901 0.67 0.524039
Target:  5'- -cCUgCAU-GCGUUCGAUCGCCgcgCCGAc -3'
miRNA:   3'- caGAaGUAgCGCGAGCUAGCGG---GGCU- -5'
28104 5' -56.2 NC_005887.1 + 5887 0.67 0.524039
Target:  5'- -cCUUCGcgaccCGCGCcgacUCGAUCGCCgCCGu -3'
miRNA:   3'- caGAAGUa----GCGCG----AGCUAGCGG-GGCu -5'
28104 5' -56.2 NC_005887.1 + 36970 0.67 0.524039
Target:  5'- cGUCUcggCGUCGCGCgggUCGAgcUCGCCggCGAg -3'
miRNA:   3'- -CAGAa--GUAGCGCG---AGCU--AGCGGg-GCU- -5'
28104 5' -56.2 NC_005887.1 + 3547 0.67 0.513406
Target:  5'- ----aCGUCGUGCUCGAUCaucagcgcgccaGgCCCGAa -3'
miRNA:   3'- cagaaGUAGCGCGAGCUAG------------CgGGGCU- -5'
28104 5' -56.2 NC_005887.1 + 17634 0.68 0.496583
Target:  5'- cGUgUUCGUCGCGC-CGGUcacguaguuccaguaCGCgCCGAc -3'
miRNA:   3'- -CAgAAGUAGCGCGaGCUA---------------GCGgGGCU- -5'
28104 5' -56.2 NC_005887.1 + 2489 0.68 0.492415
Target:  5'- uGUCaUUCGUCgGCGCgggcuUCGCCUCGAa -3'
miRNA:   3'- -CAG-AAGUAG-CGCGagcu-AGCGGGGCU- -5'
28104 5' -56.2 NC_005887.1 + 17433 0.68 0.482069
Target:  5'- ----aCAUCGCGCUCGucgagCGCuacggCCCGAa -3'
miRNA:   3'- cagaaGUAGCGCGAGCua---GCG-----GGGCU- -5'
28104 5' -56.2 NC_005887.1 + 12721 0.68 0.482069
Target:  5'- gGUCgcgCAgcagcagaaUGCGCUCGAUCGCgCCGc -3'
miRNA:   3'- -CAGaa-GUa--------GCGCGAGCUAGCGgGGCu -5'
28104 5' -56.2 NC_005887.1 + 4717 0.68 0.482069
Target:  5'- gGUCUgcgCGUCGCugagaucCUUGAUCGCgCCGGc -3'
miRNA:   3'- -CAGAa--GUAGCGc------GAGCUAGCGgGGCU- -5'
28104 5' -56.2 NC_005887.1 + 40828 0.68 0.467764
Target:  5'- cUCggCggCGCGCggcgcgccaacggCGAUCGCCUCGAc -3'
miRNA:   3'- cAGaaGuaGCGCGa------------GCUAGCGGGGCU- -5'
28104 5' -56.2 NC_005887.1 + 31270 0.68 0.451687
Target:  5'- ---cUCGUCGgcCGCgUCGAUCGCCUCGu -3'
miRNA:   3'- cagaAGUAGC--GCG-AGCUAGCGGGGCu -5'
28104 5' -56.2 NC_005887.1 + 2429 0.69 0.394251
Target:  5'- uGUCUUCGUCgucggccugcgaGCGCU-GGUCGCCcgCCGGa -3'
miRNA:   3'- -CAGAAGUAG------------CGCGAgCUAGCGG--GGCU- -5'
28104 5' -56.2 NC_005887.1 + 4609 0.7 0.350148
Target:  5'- uUCcUCGUCgGUGCUC-AUCGCCUCGAc -3'
miRNA:   3'- cAGaAGUAG-CGCGAGcUAGCGGGGCU- -5'
28104 5' -56.2 NC_005887.1 + 34551 0.71 0.308897
Target:  5'- cGUCUUCGUCuGCGCguagaugUCGAUCGUCgCGu -3'
miRNA:   3'- -CAGAAGUAG-CGCG-------AGCUAGCGGgGCu -5'
28104 5' -56.2 NC_005887.1 + 34865 0.72 0.287144
Target:  5'- -aCUUgAUCGCGgcCUCGAUCGCCuuGu -3'
miRNA:   3'- caGAAgUAGCGC--GAGCUAGCGGggCu -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.