miRNA display CGI


Results 1 - 20 of 31 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
12990 5' -59.8 NC_003387.1 + 39686 0.66 0.510017
Target:  5'- cCUUGUCGGCguUGCGCagCGaCGUG-CGGg -3'
miRNA:   3'- -GAGCAGCCG--GCGUGa-GC-GCACaGCCa -5'
12990 5' -59.8 NC_003387.1 + 17480 0.66 0.510017
Target:  5'- gUCGUCGG-CGUACUUGCGggcgccgCGGc -3'
miRNA:   3'- gAGCAGCCgGCGUGAGCGCaca----GCCa -5'
12990 5' -59.8 NC_003387.1 + 10194 0.66 0.499962
Target:  5'- -gCGUCGGUcaugCGgGC-CGCGUGaUCGGUc -3'
miRNA:   3'- gaGCAGCCG----GCgUGaGCGCAC-AGCCA- -5'
12990 5' -59.8 NC_003387.1 + 29866 0.66 0.499962
Target:  5'- uUCGUCGGCgaggGCGCUUuCGUGUugaCGGg -3'
miRNA:   3'- gAGCAGCCGg---CGUGAGcGCACA---GCCa -5'
12990 5' -59.8 NC_003387.1 + 4187 0.66 0.489996
Target:  5'- cCUCGgcgcggugcuUCGGCC--AC-CGCGUGUCGGc -3'
miRNA:   3'- -GAGC----------AGCCGGcgUGaGCGCACAGCCa -5'
12990 5' -59.8 NC_003387.1 + 29654 0.66 0.489996
Target:  5'- -cUGUCGGCCuugcGCACggcguagUGCGUGaUCGGc -3'
miRNA:   3'- gaGCAGCCGG----CGUGa------GCGCAC-AGCCa -5'
12990 5' -59.8 NC_003387.1 + 31019 0.66 0.469379
Target:  5'- gUCGgcgCgGGCCGCGCUCGCcgaggcggccaggGcGUCGGc -3'
miRNA:   3'- gAGCa--G-CCGGCGUGAGCG-------------CaCAGCCa -5'
12990 5' -59.8 NC_003387.1 + 6369 0.67 0.441658
Target:  5'- gCUUGgccUCGGCCGCGggcgacgcCUUGCGUGggCGGc -3'
miRNA:   3'- -GAGC---AGCCGGCGU--------GAGCGCACa-GCCa -5'
12990 5' -59.8 NC_003387.1 + 40900 0.67 0.441658
Target:  5'- aUCaa-GGCCGCGaUCGCG-GUCGGg -3'
miRNA:   3'- gAGcagCCGGCGUgAGCGCaCAGCCa -5'
12990 5' -59.8 NC_003387.1 + 5767 0.67 0.432316
Target:  5'- -gCGgaacCGGCCGCGCUCGCcg--CGGa -3'
miRNA:   3'- gaGCa---GCCGGCGUGAGCGcacaGCCa -5'
12990 5' -59.8 NC_003387.1 + 491 0.67 0.432316
Target:  5'- gCUCGUCGcGaugCGCGCcCGCGUGgcgaccgCGGUu -3'
miRNA:   3'- -GAGCAGC-Cg--GCGUGaGCGCACa------GCCA- -5'
12990 5' -59.8 NC_003387.1 + 35817 0.67 0.42309
Target:  5'- gUUGUCGGCCggGUACUgcaGCGcGUCGGc -3'
miRNA:   3'- gAGCAGCCGG--CGUGAg--CGCaCAGCCa -5'
12990 5' -59.8 NC_003387.1 + 11700 0.68 0.378794
Target:  5'- gUCGUCgGGCuCGCugUCGCGauUUGGg -3'
miRNA:   3'- gAGCAG-CCG-GCGugAGCGCacAGCCa -5'
12990 5' -59.8 NC_003387.1 + 30747 0.68 0.370315
Target:  5'- gCUCGUCGGgCaGCAC---CGUGUCGGg -3'
miRNA:   3'- -GAGCAGCCgG-CGUGagcGCACAGCCa -5'
12990 5' -59.8 NC_003387.1 + 37375 0.68 0.353752
Target:  5'- gUCGggCGGCgGCGCccCGC-UGUCGGUa -3'
miRNA:   3'- gAGCa-GCCGgCGUGa-GCGcACAGCCA- -5'
12990 5' -59.8 NC_003387.1 + 43237 0.68 0.353752
Target:  5'- aCUCGUUGacGCCGUACUCGgG-GUCGa- -3'
miRNA:   3'- -GAGCAGC--CGGCGUGAGCgCaCAGCca -5'
12990 5' -59.8 NC_003387.1 + 22668 0.68 0.353752
Target:  5'- -cCGUCaGGgCGCGCUCGUGgg-CGGUg -3'
miRNA:   3'- gaGCAG-CCgGCGUGAGCGCacaGCCA- -5'
12990 5' -59.8 NC_003387.1 + 37125 0.69 0.329902
Target:  5'- -aCGUCGGCCGgGC-CGUGaugGUUGGg -3'
miRNA:   3'- gaGCAGCCGGCgUGaGCGCa--CAGCCa -5'
12990 5' -59.8 NC_003387.1 + 19444 0.69 0.30726
Target:  5'- -gCGUUaaGGCCGUGCgggCGCGUGUCaGUg -3'
miRNA:   3'- gaGCAG--CCGGCGUGa--GCGCACAGcCA- -5'
12990 5' -59.8 NC_003387.1 + 22730 0.7 0.299981
Target:  5'- --aGUCGGgCGUACUCGCG-GUCGc- -3'
miRNA:   3'- gagCAGCCgGCGUGAGCGCaCAGCca -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.