miRNA display CGI


Results 1 - 20 of 39 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
26484 3' -59.9 NC_005357.1 + 26833 0.96 0.002753
Target:  5'- uCCUGGCCGAUG-GcGCGGUGCAUCCGCa -3'
miRNA:   3'- -GGACCGGCUACgC-CGCCACGUAGGCG- -5'
26484 3' -59.9 NC_005357.1 + 14352 0.75 0.099449
Target:  5'- gCUGGUucgCGGUGUccuggaaGGCGGggGCAUCCGCg -3'
miRNA:   3'- gGACCG---GCUACG-------CCGCCa-CGUAGGCG- -5'
26484 3' -59.9 NC_005357.1 + 14578 0.75 0.105427
Target:  5'- aCCgGGCUGAUGcCGGCGGccgAUCCGCu -3'
miRNA:   3'- -GGaCCGGCUAC-GCCGCCacgUAGGCG- -5'
26484 3' -59.9 NC_005357.1 + 24984 0.73 0.135064
Target:  5'- aCCUGGCCucGAUGCuGGCGGgGCcaCUGCu -3'
miRNA:   3'- -GGACCGG--CUACG-CCGCCaCGuaGGCG- -5'
26484 3' -59.9 NC_005357.1 + 31454 0.73 0.150562
Target:  5'- gCCUGGCCGAacagGUGGCcgcaguguccccGGcUGUcgCCGCg -3'
miRNA:   3'- -GGACCGGCUa---CGCCG------------CC-ACGuaGGCG- -5'
26484 3' -59.9 NC_005357.1 + 9317 0.72 0.163228
Target:  5'- aCCUGGCggcgcacguCGgcGCGGCGGgcggcgGCAUCCu- -3'
miRNA:   3'- -GGACCG---------GCuaCGCCGCCa-----CGUAGGcg -5'
26484 3' -59.9 NC_005357.1 + 32554 0.72 0.167659
Target:  5'- gCCUGGCCGAgaagcaGCGcGcCGGUGCca-CGCu -3'
miRNA:   3'- -GGACCGGCUa-----CGC-C-GCCACGuagGCG- -5'
26484 3' -59.9 NC_005357.1 + 41958 0.71 0.196565
Target:  5'- aCUGGCgauuguCGAaGCGGUGGUGCG-CgGCg -3'
miRNA:   3'- gGACCG------GCUaCGCCGCCACGUaGgCG- -5'
26484 3' -59.9 NC_005357.1 + 14836 0.71 0.207128
Target:  5'- cCCaGGUCGAUGCcguuGGCGGccaGCG-CCGCa -3'
miRNA:   3'- -GGaCCGGCUACG----CCGCCa--CGUaGGCG- -5'
26484 3' -59.9 NC_005357.1 + 985 0.7 0.218178
Target:  5'- aCUUGGCCGcc-UGGCGGUGCcgugguucaCCGCa -3'
miRNA:   3'- -GGACCGGCuacGCCGCCACGua-------GGCG- -5'
26484 3' -59.9 NC_005357.1 + 4287 0.7 0.22389
Target:  5'- -aUGGCCG-UGuCGGCGGUGaa-CUGCa -3'
miRNA:   3'- ggACCGGCuAC-GCCGCCACguaGGCG- -5'
26484 3' -59.9 NC_005357.1 + 22800 0.7 0.241791
Target:  5'- gCUGGCCGAUGUcGCGGcccGCAUgaccCCGg -3'
miRNA:   3'- gGACCGGCUACGcCGCCa--CGUA----GGCg -5'
26484 3' -59.9 NC_005357.1 + 9504 0.69 0.260869
Target:  5'- cCCUGGCCGAacagccagccgUGCaGGCcGUGg--CCGCa -3'
miRNA:   3'- -GGACCGGCU-----------ACG-CCGcCACguaGGCG- -5'
26484 3' -59.9 NC_005357.1 + 13407 0.69 0.267495
Target:  5'- aCCUGGCCGAaGC-GCGGcGCcuggUCGCc -3'
miRNA:   3'- -GGACCGGCUaCGcCGCCaCGua--GGCG- -5'
26484 3' -59.9 NC_005357.1 + 24577 0.69 0.274257
Target:  5'- aCCUGGgCGAcgaggccacgGUGGCGG-GCAUcaacCCGCc -3'
miRNA:   3'- -GGACCgGCUa---------CGCCGCCaCGUA----GGCG- -5'
26484 3' -59.9 NC_005357.1 + 11182 0.69 0.281155
Target:  5'- gCUGGUCGGccGUGGUgauGGUGCGgucaaugCCGCg -3'
miRNA:   3'- gGACCGGCUa-CGCCG---CCACGUa------GGCG- -5'
26484 3' -59.9 NC_005357.1 + 19478 0.69 0.28819
Target:  5'- gCUUGcGCCaGGUGcCGGUGG-GCAggCCGCu -3'
miRNA:   3'- -GGAC-CGG-CUAC-GCCGCCaCGUa-GGCG- -5'
26484 3' -59.9 NC_005357.1 + 41606 0.68 0.293197
Target:  5'- aCCUGGCCGAcguucggcaagggcUGgGcGCGGcGCGU-CGCc -3'
miRNA:   3'- -GGACCGGCU--------------ACgC-CGCCaCGUAgGCG- -5'
26484 3' -59.9 NC_005357.1 + 35855 0.68 0.302674
Target:  5'- cCCUGGCCGAgGCGGaUGGcaaGCccuaCGCg -3'
miRNA:   3'- -GGACCGGCUaCGCC-GCCa--CGuag-GCG- -5'
26484 3' -59.9 NC_005357.1 + 21584 0.68 0.310123
Target:  5'- --cGGCCacuucgGUGGCGGU-CAUCUGCg -3'
miRNA:   3'- ggaCCGGcua---CGCCGCCAcGUAGGCG- -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.