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
1599 3' -55.8 NC_001347.2 + 8611 0.66 0.958806
Target:  5'- --gUCAcGCAGGCGCUggCGUUCccguAGCgGg -3'
miRNA:   3'- gugAGU-CGUCCGCGA--GCAAGu---UCGgC- -5'
1599 3' -55.8 NC_001347.2 + 2361 0.66 0.958806
Target:  5'- uGCUgGGCGcgcuGGCGCUgGgacgCGAGUCGg -3'
miRNA:   3'- gUGAgUCGU----CCGCGAgCaa--GUUCGGC- -5'
1599 3' -55.8 NC_001347.2 + 76064 0.66 0.942702
Target:  5'- -----cGguGGCGCUCGcUCAGGCgGa -3'
miRNA:   3'- gugaguCguCCGCGAGCaAGUUCGgC- -5'
1599 3' -55.8 NC_001347.2 + 158039 0.66 0.942702
Target:  5'- cCGgaCAGCAGGCGCgucaCGUa-GAGCCc -3'
miRNA:   3'- -GUgaGUCGUCCGCGa---GCAagUUCGGc -5'
1599 3' -55.8 NC_001347.2 + 199266 0.67 0.922979
Target:  5'- gCGCUCGcCAGGCGCUacguUGUUUAAGaCGg -3'
miRNA:   3'- -GUGAGUcGUCCGCGA----GCAAGUUCgGC- -5'
1599 3' -55.8 NC_001347.2 + 225428 0.67 0.911739
Target:  5'- aCGCgUCAGCccGCGCUCGgcaGAGCUa -3'
miRNA:   3'- -GUG-AGUCGucCGCGAGCaagUUCGGc -5'
1599 3' -55.8 NC_001347.2 + 81490 0.68 0.905776
Target:  5'- uCGCUCGGCGGGUGCg----CAccGCCGg -3'
miRNA:   3'- -GUGAGUCGUCCGCGagcaaGUu-CGGC- -5'
1599 3' -55.8 NC_001347.2 + 93143 0.68 0.905167
Target:  5'- -gUUCGGCGGGCGgaccgcuCUCGUUCcgcGGCCc -3'
miRNA:   3'- guGAGUCGUCCGC-------GAGCAAGu--UCGGc -5'
1599 3' -55.8 NC_001347.2 + 87648 0.68 0.893175
Target:  5'- uCGC-CAGCGGcGCGCgugCGgaUCAGGCCc -3'
miRNA:   3'- -GUGaGUCGUC-CGCGa--GCa-AGUUCGGc -5'
1599 3' -55.8 NC_001347.2 + 148656 0.69 0.857895
Target:  5'- gGCUCcgcGCAGG-GCUCGggCAAGCgGc -3'
miRNA:   3'- gUGAGu--CGUCCgCGAGCaaGUUCGgC- -5'
1599 3' -55.8 NC_001347.2 + 48254 0.71 0.773505
Target:  5'- aUACUCGGCcugGGGCGCgggcUCGUUCGuGGCUa -3'
miRNA:   3'- -GUGAGUCG---UCCGCG----AGCAAGU-UCGGc -5'
1599 3' -55.8 NC_001347.2 + 99951 0.72 0.726252
Target:  5'- uGCUCAGguGGCacaccgucuGCUCGggCAAGCg- -3'
miRNA:   3'- gUGAGUCguCCG---------CGAGCaaGUUCGgc -5'
1599 3' -55.8 NC_001347.2 + 166484 1.08 0.004928
Target:  5'- aCACUCAGCAGGCGCUCGUUCAAGCCGc -3'
miRNA:   3'- -GUGAGUCGUCCGCGAGCAAGUUCGGC- -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.