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
22234 3' -55.9 NC_005045.1 + 33680 0.66 0.626746
Target:  5'- cCUGCCGCCgACca-UCAAgGCCCUgGc -3'
miRNA:   3'- -GACGGCGGgUGcacAGUUaUGGGAgC- -5'
22234 3' -55.9 NC_005045.1 + 39632 0.66 0.626746
Target:  5'- cCUGCCGgCgACGgcggcgacgagcUGUCGuAUGCCCUgGg -3'
miRNA:   3'- -GACGGCgGgUGC------------ACAGU-UAUGGGAgC- -5'
22234 3' -55.9 NC_005045.1 + 9414 0.66 0.593386
Target:  5'- aCUGCCGaCCGgG-GUCAAgGCCCUg- -3'
miRNA:   3'- -GACGGCgGGUgCaCAGUUaUGGGAgc -5'
22234 3' -55.9 NC_005045.1 + 14211 0.66 0.593386
Target:  5'- -aGCgGCCCAUGg--CGGUGCCCgcCGg -3'
miRNA:   3'- gaCGgCGGGUGCacaGUUAUGGGa-GC- -5'
22234 3' -55.9 NC_005045.1 + 23021 0.67 0.517106
Target:  5'- -gGCUGCCCAaauCGUGUCcAUcAUCUUCGg -3'
miRNA:   3'- gaCGGCGGGU---GCACAGuUA-UGGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 2173 0.68 0.506503
Target:  5'- -aGCaGCCC-CGcGUCGAUACCCUg- -3'
miRNA:   3'- gaCGgCGGGuGCaCAGUUAUGGGAgc -5'
22234 3' -55.9 NC_005045.1 + 9477 0.69 0.425502
Target:  5'- -cGUCGCCCugGccgGUgGGUuCCCUCGc -3'
miRNA:   3'- gaCGGCGGGugCa--CAgUUAuGGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 39361 0.7 0.387994
Target:  5'- -aGCCGCCCagccACGggugccGUCGAgGCCCUUGc -3'
miRNA:   3'- gaCGGCGGG----UGCa-----CAGUUaUGGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 18186 0.7 0.387994
Target:  5'- aUGCgUGCCCugGggaugcgGUCGAUggACCCUUGg -3'
miRNA:   3'- gACG-GCGGGugCa------CAGUUA--UGGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 22765 0.7 0.364808
Target:  5'- gUGCCGCCCAgCGUGUucucugccucuuccgCAGUGaugcggacuUCCUCGg -3'
miRNA:   3'- gACGGCGGGU-GCACA---------------GUUAU---------GGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 7681 0.71 0.352725
Target:  5'- cCUGgCGUcaUCACGUuguaGUCGAUGCCCUUGg -3'
miRNA:   3'- -GACgGCG--GGUGCA----CAGUUAUGGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 13881 0.72 0.289209
Target:  5'- gCUGCCGUCCGgGUgguccacgaacGUCAGgguuuCCCUCGg -3'
miRNA:   3'- -GACGGCGGGUgCA-----------CAGUUau---GGGAGC- -5'
22234 3' -55.9 NC_005045.1 + 962 1.08 0.000751
Target:  5'- cCUGCCGCCCACGUGUCAAUACCCUCGc -3'
miRNA:   3'- -GACGGCGGGUGCACAGUUAUGGGAGC- -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.