miRNA display CGI


Results 1 - 20 of 36 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
3126 3' -57.2 NC_001493.1 + 36165 0.66 0.842819
Target:  5'- --gGGCUCCuguggagcgaggGguUCGGGAacgggcuGUGGCAGCg -3'
miRNA:   3'- gggUCGAGG------------CguAGCUCU-------CACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 14964 0.67 0.789433
Target:  5'- uCCC-GCUCCGCuccuggacgaccucGUCGAGcucGG-GGguGCg -3'
miRNA:   3'- -GGGuCGAGGCG--------------UAGCUC---UCaCCguCG- -5'
3126 3' -57.2 NC_001493.1 + 19514 0.67 0.792157
Target:  5'- aUCAGCUCC-CAcUUGaAGAGgcgcggGGCGGCg -3'
miRNA:   3'- gGGUCGAGGcGU-AGC-UCUCa-----CCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 19886 0.67 0.801143
Target:  5'- uCCCAGUcCCcCGUCGGGAGUcGCgccGGCc -3'
miRNA:   3'- -GGGUCGaGGcGUAGCUCUCAcCG---UCG- -5'
3126 3' -57.2 NC_001493.1 + 87860 0.67 0.809976
Target:  5'- aUCCAGCUCCucguacGCcgCGGG-G-GGCAGg -3'
miRNA:   3'- -GGGUCGAGG------CGuaGCUCuCaCCGUCg -5'
3126 3' -57.2 NC_001493.1 + 9131 0.66 0.818649
Target:  5'- uCCCcGCgaCCGCGcuccCGGGGaUGGCGGCg -3'
miRNA:   3'- -GGGuCGa-GGCGUa---GCUCUcACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 124686 0.66 0.818649
Target:  5'- uCCCcGCgaCCGCGcuccCGGGGaUGGCGGCg -3'
miRNA:   3'- -GGGuCGa-GGCGUa---GCUCUcACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 43752 0.66 0.818649
Target:  5'- cCCCGauGaCUCCGCGauggccguUCGuuGGUGGUAGUu -3'
miRNA:   3'- -GGGU--C-GAGGCGU--------AGCucUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 51031 0.66 0.827153
Target:  5'- cCCaCAGCU-CGCucaaGGuGGUGGCAGCu -3'
miRNA:   3'- -GG-GUCGAgGCGuag-CUcUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 118440 0.67 0.773765
Target:  5'- gCCAGagugggcagaguCUUCGagaaGAGGGUGGCGGCg -3'
miRNA:   3'- gGGUC------------GAGGCguagCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 2886 0.67 0.773765
Target:  5'- gCCAGagugggcagaguCUUCGagaaGAGGGUGGCGGCg -3'
miRNA:   3'- gGGUC------------GAGGCguagCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 60080 0.7 0.611528
Target:  5'- aCCGGUgaCCGUgacggguuggcgagGUCGAGGGUGGUGGUu -3'
miRNA:   3'- gGGUCGa-GGCG--------------UAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 121432 1.13 0.001007
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 5680 1.1 0.001753
Target:  5'- aCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- gGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 121234 1.1 0.001753
Target:  5'- aCCAGCUCCGCAUCGAGAGUGGCAGCu -3'
miRNA:   3'- gGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 5793 1.1 0.001753
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 121347 1.1 0.001753
Target:  5'- aCCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- -GGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3126 3' -57.2 NC_001493.1 + 8263 0.74 0.40421
Target:  5'- aCCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- -GGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3126 3' -57.2 NC_001493.1 + 123817 0.74 0.40421
Target:  5'- aCCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- -GGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3126 3' -57.2 NC_001493.1 + 29697 0.72 0.495127
Target:  5'- cCCCuggAGCUCCGCAacgCGAcucucGAGcUGGCGGUu -3'
miRNA:   3'- -GGG---UCGAGGCGUa--GCU-----CUC-ACCGUCG- -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.