miRNA display CGI


Results 1 - 19 of 19 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
24524 3' -54.9 NC_005264.1 + 47301 0.66 0.943274
Target:  5'- uGCCaugaUGGCagcGGGGAACUGCCcgCg -3'
miRNA:   3'- cUGGcaagACCG---CUCCUUGACGGuaG- -5'
24524 3' -54.9 NC_005264.1 + 140561 0.66 0.938577
Target:  5'- cGACCcugCUGGCGAgacaacGGAAuCUGCUGUUa -3'
miRNA:   3'- -CUGGcaaGACCGCU------CCUU-GACGGUAG- -5'
24524 3' -54.9 NC_005264.1 + 75571 0.67 0.917351
Target:  5'- cACCGUUUUGGUGuGGAaaagauuugcGCaGCCGUa -3'
miRNA:   3'- cUGGCAAGACCGCuCCU----------UGaCGGUAg -5'
24524 3' -54.9 NC_005264.1 + 156159 0.67 0.915014
Target:  5'- cGGCCGUcucggccucgcugCUGGCGccAGGAucuCUGCCGg- -3'
miRNA:   3'- -CUGGCAa------------GACCGC--UCCUu--GACGGUag -5'
24524 3' -54.9 NC_005264.1 + 37132 0.67 0.915014
Target:  5'- cGGCCGUcucggccucgcugCUGGCGccAGGAucuCUGCCGg- -3'
miRNA:   3'- -CUGGCAa------------GACCGC--UCCUu--GACGGUag -5'
24524 3' -54.9 NC_005264.1 + 151470 0.69 0.822677
Target:  5'- --------aGGCGAGGAACUGCCAc- -3'
miRNA:   3'- cuggcaagaCCGCUCCUUGACGGUag -5'
24524 3' -54.9 NC_005264.1 + 158246 0.69 0.822677
Target:  5'- cGCCGcggcgCUGGCGGGGAGggcCUGCguUCc -3'
miRNA:   3'- cUGGCaa---GACCGCUCCUU---GACGguAG- -5'
24524 3' -54.9 NC_005264.1 + 150564 0.69 0.822677
Target:  5'- gGGCCGUUggGGUGGGGGcggACgGCCAUUc -3'
miRNA:   3'- -CUGGCAAgaCCGCUCCU---UGaCGGUAG- -5'
24524 3' -54.9 NC_005264.1 + 31537 0.69 0.822677
Target:  5'- gGGCCGUUggGGUGGGGGcggACgGCCAUUc -3'
miRNA:   3'- -CUGGCAAgaCCGCUCCU---UGaCGGUAG- -5'
24524 3' -54.9 NC_005264.1 + 39219 0.69 0.822677
Target:  5'- cGCCGcggcgCUGGCGGGGAGggcCUGCguUCc -3'
miRNA:   3'- cUGGCaa---GACCGCUCCUU---GACGguAG- -5'
24524 3' -54.9 NC_005264.1 + 32443 0.69 0.822677
Target:  5'- --------aGGCGAGGAACUGCCAc- -3'
miRNA:   3'- cuggcaagaCCGCUCCUUGACGGUag -5'
24524 3' -54.9 NC_005264.1 + 9951 0.69 0.813965
Target:  5'- aGACg---CcGGCGAGGGACUGCCGg- -3'
miRNA:   3'- -CUGgcaaGaCCGCUCCUUGACGGUag -5'
24524 3' -54.9 NC_005264.1 + 128977 0.69 0.813965
Target:  5'- aGACg---CcGGCGAGGGACUGCCGg- -3'
miRNA:   3'- -CUGgcaaGaCCGCUCCUUGACGGUag -5'
24524 3' -54.9 NC_005264.1 + 113150 0.72 0.63717
Target:  5'- cGACaaCGUgUCUGGCGAGGAGCU-CCAa- -3'
miRNA:   3'- -CUG--GCA-AGACCGCUCCUUGAcGGUag -5'
24524 3' -54.9 NC_005264.1 + 82414 0.74 0.534813
Target:  5'- -cCCGgagagCUGGCGGGGGcagcaGCUGUCGUCg -3'
miRNA:   3'- cuGGCaa---GACCGCUCCU-----UGACGGUAG- -5'
24524 3' -54.9 NC_005264.1 + 32367 0.81 0.220043
Target:  5'- gGGCUGUUCUGGCGAGGA--UGCCGg- -3'
miRNA:   3'- -CUGGCAAGACCGCUCCUugACGGUag -5'
24524 3' -54.9 NC_005264.1 + 151394 0.81 0.220043
Target:  5'- gGGCUGUUCUGGCGAGGA--UGCCGg- -3'
miRNA:   3'- -CUGGCAAGACCGCUCCUugACGGUag -5'
24524 3' -54.9 NC_005264.1 + 130367 1.09 0.003553
Target:  5'- gGACCGUUCUGGCGAGGAACUGCCAUCu -3'
miRNA:   3'- -CUGGCAAGACCGCUCCUUGACGGUAG- -5'
24524 3' -54.9 NC_005264.1 + 11340 1.09 0.003553
Target:  5'- gGACCGUUCUGGCGAGGAACUGCCAUCu -3'
miRNA:   3'- -CUGGCAAGACCGCUCCUUGACGGUAG- -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.