miRNA display CGI


Results 1 - 20 of 26 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
25946 5' -53.6 NC_005337.1 + 8342 0.69 0.879092
Target:  5'- ---cCUCgAGCAG-CGGGGCAaUCUGCGa -3'
miRNA:   3'- ccuaGAG-UUGUCgGCCCUGU-AGACGC- -5'
25946 5' -53.6 NC_005337.1 + 9360 0.67 0.939552
Target:  5'- gGGGUC-CAGgGGCaGGGGCAUgCUGgCGa -3'
miRNA:   3'- -CCUAGaGUUgUCGgCCCUGUA-GAC-GC- -5'
25946 5' -53.6 NC_005337.1 + 18941 0.68 0.912385
Target:  5'- -----aCAGCAGgCGGGACAUCcGCu -3'
miRNA:   3'- ccuagaGUUGUCgGCCCUGUAGaCGc -5'
25946 5' -53.6 NC_005337.1 + 19699 0.66 0.952892
Target:  5'- uGGcgUaCAGC-GCCGGcGcCAUCUGCGg -3'
miRNA:   3'- -CCuaGaGUUGuCGGCC-CuGUAGACGC- -5'
25946 5' -53.6 NC_005337.1 + 21395 0.75 0.563176
Target:  5'- cGAUCUCGGCGGCCGcGGCAUCgucgacGUGg -3'
miRNA:   3'- cCUAGAGUUGUCGGCcCUGUAGa-----CGC- -5'
25946 5' -53.6 NC_005337.1 + 21797 0.67 0.934616
Target:  5'- cGAUCUCAcGCAGCCGa-ACAUCgucgggUGCGa -3'
miRNA:   3'- cCUAGAGU-UGUCGGCccUGUAG------ACGC- -5'
25946 5' -53.6 NC_005337.1 + 31794 0.7 0.805347
Target:  5'- cGGAaCUCGuccuugcuCAGCgGGGACuUCUGCu -3'
miRNA:   3'- -CCUaGAGUu-------GUCGgCCCUGuAGACGc -5'
25946 5' -53.6 NC_005337.1 + 36507 0.68 0.89108
Target:  5'- cGGcgCUCGGCGcgacgauccugaacGCCGcGGGCGUCcccgGCGg -3'
miRNA:   3'- -CCuaGAGUUGU--------------CGGC-CCUGUAGa---CGC- -5'
25946 5' -53.6 NC_005337.1 + 44709 0.67 0.934108
Target:  5'- uGGugugCUCGacguGCGGCCGGGACcUCUccaacgaGCGc -3'
miRNA:   3'- -CCua--GAGU----UGUCGGCCCUGuAGA-------CGC- -5'
25946 5' -53.6 NC_005337.1 + 46670 0.71 0.774682
Target:  5'- cGAUCgcgCAGCAgucgcccgagcggcGCCGGGAgGUCgGCGa -3'
miRNA:   3'- cCUAGa--GUUGU--------------CGGCCCUgUAGaCGC- -5'
25946 5' -53.6 NC_005337.1 + 51908 0.71 0.777534
Target:  5'- uGGUCUCGgugucGCGGCCGaccuucggcacGGGCAUCgGCGg -3'
miRNA:   3'- cCUAGAGU-----UGUCGGC-----------CCUGUAGaCGC- -5'
25946 5' -53.6 NC_005337.1 + 57671 0.66 0.964093
Target:  5'- aGGcgCUCAucgaGCAGCCGuGGACcUCcaccaugaUGCa -3'
miRNA:   3'- -CCuaGAGU----UGUCGGC-CCUGuAG--------ACGc -5'
25946 5' -53.6 NC_005337.1 + 57854 0.71 0.748504
Target:  5'- gGGAUCgaGGCGGCCagGGGACAcCUGUGc -3'
miRNA:   3'- -CCUAGagUUGUCGG--CCCUGUaGACGC- -5'
25946 5' -53.6 NC_005337.1 + 61711 0.68 0.912385
Target:  5'- aGGuaguUCUCcuccuGgAGCCGGGACA--UGCGg -3'
miRNA:   3'- -CCu---AGAGu----UgUCGGCCCUGUagACGC- -5'
25946 5' -53.6 NC_005337.1 + 64775 0.66 0.964093
Target:  5'- aGGAUCUCGACGaaCCGGGGguccuCcgCgcgGCGg -3'
miRNA:   3'- -CCUAGAGUUGUc-GGCCCU-----GuaGa--CGC- -5'
25946 5' -53.6 NC_005337.1 + 67459 0.66 0.96059
Target:  5'- uGAUC-CGgcGCAGCCGccgcuucgucgaGGGCGUCUcGCGg -3'
miRNA:   3'- cCUAGaGU--UGUCGGC------------CCUGUAGA-CGC- -5'
25946 5' -53.6 NC_005337.1 + 81436 0.68 0.914787
Target:  5'- cGGGUCaaguUCAGCGagcaccgggugcaucGCCGGGGCggGUCUaGCGu -3'
miRNA:   3'- -CCUAG----AGUUGU---------------CGGCCCUG--UAGA-CGC- -5'
25946 5' -53.6 NC_005337.1 + 83840 0.69 0.879092
Target:  5'- cGGGUCUcCAGCA-CCGGcGACGacUCUGgGg -3'
miRNA:   3'- -CCUAGA-GUUGUcGGCC-CUGU--AGACgC- -5'
25946 5' -53.6 NC_005337.1 + 89213 0.69 0.863373
Target:  5'- cGGAUCUCcggcCGGCCGGcGcccagcuugcggaGCAUCgUGCGg -3'
miRNA:   3'- -CCUAGAGuu--GUCGGCC-C-------------UGUAG-ACGC- -5'
25946 5' -53.6 NC_005337.1 + 103405 0.66 0.952892
Target:  5'- aGGUCgcggccCAGCAGCUGGGGC--UUGUGg -3'
miRNA:   3'- cCUAGa-----GUUGUCGGCCCUGuaGACGC- -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.