miRNA display CGI


Results 1 - 20 of 26 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
23087 3' -55.2 NC_005178.1 + 20999 0.66 0.674515
Target:  5'- gCGGcCagguCGGCCCGGuCCUugaggucgaaGACCAGGc -3'
miRNA:   3'- -GCCaGau--GCUGGGCUuGGA----------CUGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 16310 0.66 0.67341
Target:  5'- cCGGUU--CGACgCCGAugaugcgGCC-GGCCGGGg -3'
miRNA:   3'- -GCCAGauGCUG-GGCU-------UGGaCUGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 34015 0.66 0.667879
Target:  5'- uGGUUgACGuaGCCCGAGCCguUGuccacguagaagaugGCCGGGa -3'
miRNA:   3'- gCCAGaUGC--UGGGCUUGG--AC---------------UGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 35589 0.66 0.656794
Target:  5'- aCGGUCggcaacauCGGCCCGGAagCUGGggcgacggugacgcuCCAGGu -3'
miRNA:   3'- -GCCAGau------GCUGGGCUUg-GACU---------------GGUCC- -5'
23087 3' -55.2 NC_005178.1 + 13860 0.66 0.652353
Target:  5'- aGGUUU-CGACCCcGACCcgaaGGCCAGc -3'
miRNA:   3'- gCCAGAuGCUGGGcUUGGa---CUGGUCc -5'
23087 3' -55.2 NC_005178.1 + 31574 0.66 0.634564
Target:  5'- aGGUCaAggcagugaccgccgcCGGCCUGGACCUGGuccgccccguCCAGGc -3'
miRNA:   3'- gCCAGaU---------------GCUGGGCUUGGACU----------GGUCC- -5'
23087 3' -55.2 NC_005178.1 + 37094 0.66 0.634564
Target:  5'- cCGGUCgGCGACCUGGcguuccaucccgacgACCUccucgccgagGuCCAGGa -3'
miRNA:   3'- -GCCAGaUGCUGGGCU---------------UGGA----------CuGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 21146 0.67 0.618993
Target:  5'- aGGUCaugGCGcACCUcguuauGGACCUGccCCAGGg -3'
miRNA:   3'- gCCAGa--UGC-UGGG------CUUGGACu-GGUCC- -5'
23087 3' -55.2 NC_005178.1 + 16826 0.67 0.618993
Target:  5'- gGGUCaggGCGGCgaUGGGCUUGGCCuGGc -3'
miRNA:   3'- gCCAGa--UGCUGg-GCUUGGACUGGuCC- -5'
23087 3' -55.2 NC_005178.1 + 9159 0.67 0.618993
Target:  5'- uCGGUgUGCcuggucCCUGGACCUGGCCGc- -3'
miRNA:   3'- -GCCAgAUGcu----GGGCUUGGACUGGUcc -5'
23087 3' -55.2 NC_005178.1 + 20950 0.67 0.618993
Target:  5'- cCGGcacCUgACG-CCC-AGCUUGACCAGGg -3'
miRNA:   3'- -GCCa--GA-UGCuGGGcUUGGACUGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 16987 0.67 0.607884
Target:  5'- aGGUCagcgccGCGACCUGGcCCUGgaGCUGGGu -3'
miRNA:   3'- gCCAGa-----UGCUGGGCUuGGAC--UGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 6356 0.67 0.56375
Target:  5'- aGG-CgAUGAUCCGAuuGCCggugaUGACCAGGa -3'
miRNA:   3'- gCCaGaUGCUGGGCU--UGG-----ACUGGUCC- -5'
23087 3' -55.2 NC_005178.1 + 19887 0.68 0.541987
Target:  5'- -uGUCUACG-CCCGucucgacggucACCUGGCCGGu -3'
miRNA:   3'- gcCAGAUGCuGGGCu----------UGGACUGGUCc -5'
23087 3' -55.2 NC_005178.1 + 16540 0.68 0.52051
Target:  5'- uGGUCUuCGACCUcaaGGACCgggccGACCuGGc -3'
miRNA:   3'- gCCAGAuGCUGGG---CUUGGa----CUGGuCC- -5'
23087 3' -55.2 NC_005178.1 + 31162 0.68 0.52051
Target:  5'- aGGcUCcuggGCGAgCCGGACCUGGuCCuGGu -3'
miRNA:   3'- gCC-AGa---UGCUgGGCUUGGACU-GGuCC- -5'
23087 3' -55.2 NC_005178.1 + 2247 0.69 0.478629
Target:  5'- aCGuGUCguagaaccaGACCCGAGCCccGGCCAGa -3'
miRNA:   3'- -GC-CAGaug------CUGGGCUUGGa-CUGGUCc -5'
23087 3' -55.2 NC_005178.1 + 35346 0.69 0.478629
Target:  5'- aCGGUCUACaGCCaGGGCgUGAcgcuCCAGGc -3'
miRNA:   3'- -GCCAGAUGcUGGgCUUGgACU----GGUCC- -5'
23087 3' -55.2 NC_005178.1 + 14320 0.7 0.428737
Target:  5'- gCGGcCUucgacACGGCCCGcaccguCCUGACCuGGu -3'
miRNA:   3'- -GCCaGA-----UGCUGGGCuu----GGACUGGuCC- -5'
23087 3' -55.2 NC_005178.1 + 22302 0.7 0.409654
Target:  5'- uGGUCUGCGGCCgGGAagUGGCgCAGc -3'
miRNA:   3'- gCCAGAUGCUGGgCUUggACUG-GUCc -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.