miRNA display CGI


Results 1 - 13 of 13 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
21161 3' -51.2 NC_004775.1 + 15383 0.66 0.83136
Target:  5'- gAUGCGGUAcuGGGCGCUGCcuuuGGugGUg -3'
miRNA:   3'- -UGUGUCGUuuCUUGCGACG----CCugUAg -5'
21161 3' -51.2 NC_004775.1 + 6316 0.66 0.821643
Target:  5'- aACAC-----GGAACGCUGCGG-CGUUg -3'
miRNA:   3'- -UGUGucguuUCUUGCGACGCCuGUAG- -5'
21161 3' -51.2 NC_004775.1 + 36280 0.67 0.759004
Target:  5'- -gGCAGCGAcaAGGACGCgGCGcGCAg- -3'
miRNA:   3'- ugUGUCGUU--UCUUGCGaCGCcUGUag -5'
21161 3' -51.2 NC_004775.1 + 1993 0.67 0.725499
Target:  5'- cGC-CGGCAAGGGugacGCGCUGCugcuGACGUUu -3'
miRNA:   3'- -UGuGUCGUUUCU----UGCGACGc---CUGUAG- -5'
21161 3' -51.2 NC_004775.1 + 26515 0.68 0.702607
Target:  5'- gACAacuGGCAGAGuACGCUGauCGGGCAg- -3'
miRNA:   3'- -UGUg--UCGUUUCuUGCGAC--GCCUGUag -5'
21161 3' -51.2 NC_004775.1 + 35349 0.69 0.655991
Target:  5'- uGCGCGuGCAAuGAugGCUGuCGGAUggCu -3'
miRNA:   3'- -UGUGU-CGUUuCUugCGAC-GCCUGuaG- -5'
21161 3' -51.2 NC_004775.1 + 31747 0.69 0.632478
Target:  5'- uCGCAGCAGAGAucgAUGCagagGCGGcuuccggcgagaACAUCg -3'
miRNA:   3'- uGUGUCGUUUCU---UGCGa---CGCC------------UGUAG- -5'
21161 3' -51.2 NC_004775.1 + 9681 0.69 0.608964
Target:  5'- gACGCAGCAAAGuacaGGCGCUGCuGGuaguaaACAa- -3'
miRNA:   3'- -UGUGUCGUUUC----UUGCGACG-CC------UGUag -5'
21161 3' -51.2 NC_004775.1 + 3293 0.7 0.597235
Target:  5'- cGCACAGCuGAAGAAUGa-GCGcACAUCg -3'
miRNA:   3'- -UGUGUCG-UUUCUUGCgaCGCcUGUAG- -5'
21161 3' -51.2 NC_004775.1 + 15175 0.71 0.51552
Target:  5'- aACGCAGCAGAGccuguucAACGCgGCaGGCAUg -3'
miRNA:   3'- -UGUGUCGUUUC-------UUGCGaCGcCUGUAg -5'
21161 3' -51.2 NC_004775.1 + 26043 0.73 0.430441
Target:  5'- cAUGCAGCcuuugguugcGAAGAaccacgccGCGCUGCGGGCcgCg -3'
miRNA:   3'- -UGUGUCG----------UUUCU--------UGCGACGCCUGuaG- -5'
21161 3' -51.2 NC_004775.1 + 11517 0.74 0.353272
Target:  5'- cGCGCGGU----GugGUUGCGGGCAUCa -3'
miRNA:   3'- -UGUGUCGuuucUugCGACGCCUGUAG- -5'
21161 3' -51.2 NC_004775.1 + 37013 1.11 0.001067
Target:  5'- gACACAGCAAAGAACGCUGCGGACAUCg -3'
miRNA:   3'- -UGUGUCGUUUCUUGCGACGCCUGUAG- -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.