miRNA display CGI


Results 1 - 11 of 11 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
30828 3' -53.4 NC_006552.1 + 17004 0.66 0.873136
Target:  5'- aGGaAAUCC-UUCGCCUCcCGggGCCGGa -3'
miRNA:   3'- -UC-UUAGGcAAGCGGAGcGCa-UGGUCg -5'
30828 3' -53.4 NC_006552.1 + 24428 0.66 0.865205
Target:  5'- cAGAcgCaCGUUUccaaGCugCUCGCGcACCAGCg -3'
miRNA:   3'- -UCUuaG-GCAAG----CG--GAGCGCaUGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 7580 0.66 0.864399
Target:  5'- cGGGAUgCCGUUCacaGCCUCGgaaaggucgcccaUGUgcagACCGGCg -3'
miRNA:   3'- -UCUUA-GGCAAG---CGGAGC-------------GCA----UGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 28198 0.67 0.830254
Target:  5'- cGAAUUccucggCGUUCGCCccgaaggUCGCGaccuCCGGCg -3'
miRNA:   3'- uCUUAG------GCAAGCGG-------AGCGCau--GGUCG- -5'
30828 3' -53.4 NC_006552.1 + 26788 0.67 0.812842
Target:  5'- cAGAGgcCCGcaguugCGCCUUGCcgGCCGGCg -3'
miRNA:   3'- -UCUUa-GGCaa----GCGGAGCGcaUGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 59665 0.68 0.774049
Target:  5'- ----aCCGUUCGCCU-GCcucGCCGGCc -3'
miRNA:   3'- ucuuaGGCAAGCGGAgCGca-UGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 15369 0.68 0.743389
Target:  5'- cGAGcuUCUGUUUgGCCUgGCGUACCuucgaaauGGCg -3'
miRNA:   3'- uCUU--AGGCAAG-CGGAgCGCAUGG--------UCG- -5'
30828 3' -53.4 NC_006552.1 + 64643 0.69 0.690206
Target:  5'- cGAcgCUGUUCGCCgCGCc-GCCGGUc -3'
miRNA:   3'- uCUuaGGCAAGCGGaGCGcaUGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 26850 0.7 0.668466
Target:  5'- uAGAGccUCgGgcucUCGCCgcCGCGUugCAGCg -3'
miRNA:   3'- -UCUU--AGgCa---AGCGGa-GCGCAugGUCG- -5'
30828 3' -53.4 NC_006552.1 + 21167 0.71 0.559324
Target:  5'- uAGGcgcAUCCGgcCGCgUCG-GUGCCGGCa -3'
miRNA:   3'- -UCU---UAGGCaaGCGgAGCgCAUGGUCG- -5'
30828 3' -53.4 NC_006552.1 + 3948 0.72 0.548589
Target:  5'- uGAAgcUCCGUaCGUaucaaGCGUACCAGCa -3'
miRNA:   3'- uCUU--AGGCAaGCGgag--CGCAUGGUCG- -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.