miRNA display CGI


Results 1 - 20 of 79 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
29427 3' -59.3 NC_006151.1 + 54621 0.66 0.727789
Target:  5'- -gCcgGGCGCGCcccggggggaAGCgGCGG-CGCGAGc -3'
miRNA:   3'- uaGuaCCGCGCG----------UCG-UGCCaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 103636 0.66 0.727789
Target:  5'- --gGUGGCG-GCGGCgcugGCGGaCGCGGAc -3'
miRNA:   3'- uagUACCGCgCGUCG----UGCCaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 102266 0.66 0.727789
Target:  5'- cAUCcugGGCGCGCuGC-CGGagCGCGGc -3'
miRNA:   3'- -UAGua-CCGCGCGuCGuGCCa-GCGCUu -5'
29427 3' -59.3 NC_006151.1 + 62051 0.66 0.717869
Target:  5'- -gCGUGGCgGUGCAcGCGCGcgccGUCGUGAc -3'
miRNA:   3'- uaGUACCG-CGCGU-CGUGC----CAGCGCUu -5'
29427 3' -59.3 NC_006151.1 + 99555 0.66 0.717869
Target:  5'- -aCGUGG-GCGCGGCGCG--CGCGGc -3'
miRNA:   3'- uaGUACCgCGCGUCGUGCcaGCGCUu -5'
29427 3' -59.3 NC_006151.1 + 129403 0.66 0.717869
Target:  5'- --gGUGGCGCGCGGCGuauucggcgaGGUCGaCGu- -3'
miRNA:   3'- uagUACCGCGCGUCGUg---------CCAGC-GCuu -5'
29427 3' -59.3 NC_006151.1 + 134990 0.66 0.717869
Target:  5'- cUCGggcgGGCGCGUcuuGGCGgGGgCGCGGGg -3'
miRNA:   3'- uAGUa---CCGCGCG---UCGUgCCaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 133325 0.66 0.707875
Target:  5'- uGUCGaGGCGCGCcgGGCGgcCGGUucCGCGGc -3'
miRNA:   3'- -UAGUaCCGCGCG--UCGU--GCCA--GCGCUu -5'
29427 3' -59.3 NC_006151.1 + 120186 0.66 0.701847
Target:  5'- cAUCGUGGCcccggaccccaccaaGgGCAGCGCGGagcccccggcgCGCGAc -3'
miRNA:   3'- -UAGUACCG---------------CgCGUCGUGCCa----------GCGCUu -5'
29427 3' -59.3 NC_006151.1 + 105873 0.66 0.697816
Target:  5'- ----aGGUGUGCuaccGCGCGGUCgGCGAc -3'
miRNA:   3'- uaguaCCGCGCGu---CGUGCCAG-CGCUu -5'
29427 3' -59.3 NC_006151.1 + 141417 0.66 0.687702
Target:  5'- gAUCgGUGcGgGCGCGGCcCGG-CGCGAAc -3'
miRNA:   3'- -UAG-UAC-CgCGCGUCGuGCCaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 68941 0.66 0.687702
Target:  5'- gAUC-UGGCGCau-GCGCGGcUCGCGGc -3'
miRNA:   3'- -UAGuACCGCGcguCGUGCC-AGCGCUu -5'
29427 3' -59.3 NC_006151.1 + 130269 0.66 0.687702
Target:  5'- ----cGGCGCGCGGCcccgaGGcCGCGGg -3'
miRNA:   3'- uaguaCCGCGCGUCGug---CCaGCGCUu -5'
29427 3' -59.3 NC_006151.1 + 94738 0.66 0.687702
Target:  5'- cGUCccGGCGCGC-GCACucgCGCGGAa -3'
miRNA:   3'- -UAGuaCCGCGCGuCGUGccaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 78231 0.66 0.677542
Target:  5'- cUCAcgGGCGCGCAGC--GGuUCGCGc- -3'
miRNA:   3'- uAGUa-CCGCGCGUCGugCC-AGCGCuu -5'
29427 3' -59.3 NC_006151.1 + 38275 0.66 0.677542
Target:  5'- -aCGUGGC-CGCGGCcCGGcUCGcCGAGg -3'
miRNA:   3'- uaGUACCGcGCGUCGuGCC-AGC-GCUU- -5'
29427 3' -59.3 NC_006151.1 + 129749 0.66 0.677542
Target:  5'- ----aGGCGCuGCAGCACcagCGCGAAg -3'
miRNA:   3'- uaguaCCGCG-CGUCGUGccaGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 95781 0.66 0.677542
Target:  5'- -gCAUGcCGCGCauguucAGCACGG-CGCGAc -3'
miRNA:   3'- uaGUACcGCGCG------UCGUGCCaGCGCUu -5'
29427 3' -59.3 NC_006151.1 + 83602 0.66 0.677542
Target:  5'- ----aGGCGCGUgugcagcagcaGGUACGGcgUCGCGAAg -3'
miRNA:   3'- uaguaCCGCGCG-----------UCGUGCC--AGCGCUU- -5'
29427 3' -59.3 NC_006151.1 + 69639 0.67 0.657118
Target:  5'- cGUCccGcGCGUGCGGCGCcgccgGGUCGuCGAAg -3'
miRNA:   3'- -UAGuaC-CGCGCGUCGUG-----CCAGC-GCUU- -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.