miRNA display CGI


Results 1 - 16 of 16 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
28155 5' -57.6 NC_005887.1 + 14365 0.66 0.517213
Target:  5'- gGCCUGCGCuugcGGGUUCaGCGugaGCGuguccgGAu -3'
miRNA:   3'- -UGGACGCGua--CCCAAG-CGC---CGCua----CU- -5'
28155 5' -57.6 NC_005887.1 + 41282 0.66 0.496184
Target:  5'- gACCUGCGCAcGGGcgCGCuGCu---- -3'
miRNA:   3'- -UGGACGCGUaCCCaaGCGcCGcuacu -5'
28155 5' -57.6 NC_005887.1 + 18829 0.66 0.47555
Target:  5'- aACCUGuCGCcgGGGgucaCGCaGCGAaauaUGAa -3'
miRNA:   3'- -UGGAC-GCGuaCCCaa--GCGcCGCU----ACU- -5'
28155 5' -57.6 NC_005887.1 + 13877 0.66 0.47555
Target:  5'- cACgCUGuCGaCAcccGGGUuuucgauguUCGCGGCGGUGAc -3'
miRNA:   3'- -UG-GAC-GC-GUa--CCCA---------AGCGCCGCUACU- -5'
28155 5' -57.6 NC_005887.1 + 29836 0.67 0.445428
Target:  5'- cGCCagagGCGUuUGaGGaugUCGCaGGCGAUGAa -3'
miRNA:   3'- -UGGa---CGCGuAC-CCa--AGCG-CCGCUACU- -5'
28155 5' -57.6 NC_005887.1 + 3020 0.67 0.425951
Target:  5'- cGCCgGCGaggAUGG--UCGCGGCGGUGc -3'
miRNA:   3'- -UGGaCGCg--UACCcaAGCGCCGCUACu -5'
28155 5' -57.6 NC_005887.1 + 18462 0.68 0.406989
Target:  5'- cGCCgcgGCGUAggccaucGGGUUCGCGaGCGccGGc -3'
miRNA:   3'- -UGGa--CGCGUa------CCCAAGCGC-CGCuaCU- -5'
28155 5' -57.6 NC_005887.1 + 5529 0.68 0.379561
Target:  5'- gGCCUGCGuCGUGGuGgaUGCGGCag-GAg -3'
miRNA:   3'- -UGGACGC-GUACC-CaaGCGCCGcuaCU- -5'
28155 5' -57.6 NC_005887.1 + 41698 0.68 0.361976
Target:  5'- -gCUGCGCGaGGGgcucaUCaaGGCGAUGAc -3'
miRNA:   3'- ugGACGCGUaCCCa----AGcgCCGCUACU- -5'
28155 5' -57.6 NC_005887.1 + 20853 0.69 0.336679
Target:  5'- aACCUGCGCGguaacGGuGUUgGCGGCcugaAUGAu -3'
miRNA:   3'- -UGGACGCGUa----CC-CAAgCGCCGc---UACU- -5'
28155 5' -57.6 NC_005887.1 + 1578 0.69 0.312694
Target:  5'- gACCUGgGCcgGUGGGUggGUGGCGGc-- -3'
miRNA:   3'- -UGGACgCG--UACCCAagCGCCGCUacu -5'
28155 5' -57.6 NC_005887.1 + 25398 0.7 0.275646
Target:  5'- uAUCUG-GCGUGGGUUUucUGGCGAUGGg -3'
miRNA:   3'- -UGGACgCGUACCCAAGc-GCCGCUACU- -5'
28155 5' -57.6 NC_005887.1 + 37059 0.71 0.268671
Target:  5'- gGCCUGCGCGUGc--UCGCcGGCGAg-- -3'
miRNA:   3'- -UGGACGCGUACccaAGCG-CCGCUacu -5'
28155 5' -57.6 NC_005887.1 + 34706 0.71 0.242191
Target:  5'- gGCCgucgucGCGCuUGcGGUgCGCGGCGAUGu -3'
miRNA:   3'- -UGGa-----CGCGuAC-CCAaGCGCCGCUACu -5'
28155 5' -57.6 NC_005887.1 + 2988 0.71 0.242191
Target:  5'- cGCUUGCGCAgcuUGGcggcggcgucGUUCGCGGCGGc-- -3'
miRNA:   3'- -UGGACGCGU---ACC----------CAAGCGCCGCUacu -5'
28155 5' -57.6 NC_005887.1 + 24588 1.08 0.000463
Target:  5'- cACCUGCGCAUGGGUUCGCGGCGAUGAu -3'
miRNA:   3'- -UGGACGCGUACCCAAGCGCCGCUACU- -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.