miRNA display CGI


Results 1 - 20 of 20 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
23136 5' -53.1 NC_005178.1 + 20841 0.66 0.72484
Target:  5'- gGACCaggGCGCcGGCUc-AGUUgGGCGa -3'
miRNA:   3'- gUUGGa--CGCGuUCGAcuUCAAgCCGC- -5'
23136 5' -53.1 NC_005178.1 + 29235 0.66 0.713608
Target:  5'- gCGACCUGgaaaGCGGcGCUGucGUacUUGGCGa -3'
miRNA:   3'- -GUUGGACg---CGUU-CGACuuCA--AGCCGC- -5'
23136 5' -53.1 NC_005178.1 + 12256 0.66 0.690891
Target:  5'- uCGACCUGgucCGCAcccuGCUGAAGgUCaGCGc -3'
miRNA:   3'- -GUUGGAC---GCGUu---CGACUUCaAGcCGC- -5'
23136 5' -53.1 NC_005178.1 + 34191 0.66 0.690891
Target:  5'- cCGGCC-GUGCAucggguGCUGGAccUCGGCGu -3'
miRNA:   3'- -GUUGGaCGCGUu-----CGACUUcaAGCCGC- -5'
23136 5' -53.1 NC_005178.1 + 28294 0.67 0.667923
Target:  5'- cCGGCgCUGCGgGAGCUGccggggccgcugGAGUggcuggUGGCGg -3'
miRNA:   3'- -GUUG-GACGCgUUCGAC------------UUCAa-----GCCGC- -5'
23136 5' -53.1 NC_005178.1 + 17528 0.67 0.667923
Target:  5'- aCGGCCggcagcggGCGCGGGCUGGccGUUCuGCu -3'
miRNA:   3'- -GUUGGa-------CGCGUUCGACUu-CAAGcCGc -5'
23136 5' -53.1 NC_005178.1 + 21555 0.67 0.664462
Target:  5'- gCGGCUUGUGCAugauccagccgaacGGCUGGAGUaccUCGcccGCGa -3'
miRNA:   3'- -GUUGGACGCGU--------------UCGACUUCA---AGC---CGC- -5'
23136 5' -53.1 NC_005178.1 + 12078 0.67 0.656376
Target:  5'- gCGACCaGCGCcuGgUGGAGUggucgcgUGGCGg -3'
miRNA:   3'- -GUUGGaCGCGuuCgACUUCAa------GCCGC- -5'
23136 5' -53.1 NC_005178.1 + 18490 0.67 0.644806
Target:  5'- -uACCguugcaGCGCGAGCggcGAAGgggcgCGGCGc -3'
miRNA:   3'- guUGGa-----CGCGUUCGa--CUUCaa---GCCGC- -5'
23136 5' -53.1 NC_005178.1 + 15081 0.67 0.621637
Target:  5'- --uCCUGCGCAccgAGCUGGugaAGcgcUCGGCc -3'
miRNA:   3'- guuGGACGCGU---UCGACU---UCa--AGCCGc -5'
23136 5' -53.1 NC_005178.1 + 13491 0.68 0.598508
Target:  5'- gAugCUGUGCAGGgUGAuGUUgaCGGUGg -3'
miRNA:   3'- gUugGACGCGUUCgACUuCAA--GCCGC- -5'
23136 5' -53.1 NC_005178.1 + 23044 0.68 0.598508
Target:  5'- -uGCCgaGCGCAAGCgGAAGcugcUgGGCGg -3'
miRNA:   3'- guUGGa-CGCGUUCGaCUUCa---AgCCGC- -5'
23136 5' -53.1 NC_005178.1 + 4045 0.69 0.52796
Target:  5'- gCAACCgcuacuucgccCGCGAGCUGGAGgaauuccaCGGCGa -3'
miRNA:   3'- -GUUGGac---------GCGUUCGACUUCaa------GCCGC- -5'
23136 5' -53.1 NC_005178.1 + 15435 0.7 0.486248
Target:  5'- uCAGCUUGCGCAGGUUGAAGacgUCa--- -3'
miRNA:   3'- -GUUGGACGCGUUCGACUUCa--AGccgc -5'
23136 5' -53.1 NC_005178.1 + 9686 0.7 0.486248
Target:  5'- --cCCUGgGCGGcCUGGAGgUCGGCGu -3'
miRNA:   3'- guuGGACgCGUUcGACUUCaAGCCGC- -5'
23136 5' -53.1 NC_005178.1 + 5295 0.7 0.444108
Target:  5'- gGGCCgGCGCGAGCUGGAac-UGGCc -3'
miRNA:   3'- gUUGGaCGCGUUCGACUUcaaGCCGc -5'
23136 5' -53.1 NC_005178.1 + 2548 0.72 0.36644
Target:  5'- gUAGCuCUGCGaCAGGCUGG---UCGGCGc -3'
miRNA:   3'- -GUUG-GACGC-GUUCGACUucaAGCCGC- -5'
23136 5' -53.1 NC_005178.1 + 19373 0.72 0.34854
Target:  5'- -uACCUGCGCGGGCUGcucAAGaaagcCGGCa -3'
miRNA:   3'- guUGGACGCGUUCGAC---UUCaa---GCCGc -5'
23136 5' -53.1 NC_005178.1 + 20204 0.76 0.215806
Target:  5'- cCAGCCgGCGCGGGCUGccGAGcUgGGCGa -3'
miRNA:   3'- -GUUGGaCGCGUUCGAC--UUCaAgCCGC- -5'
23136 5' -53.1 NC_005178.1 + 22123 1.08 0.001113
Target:  5'- uCAACCUGCGCAAGCUGAAGUUCGGCGc -3'
miRNA:   3'- -GUUGGACGCGUUCGACUUCAAGCCGC- -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.