miRNA display CGI


Results 1 - 20 of 21 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
5557 3' -56.6 NC_001806.1 + 134643 1.1 0.001963
Target:  5'- cAGGCUGUGCACGUGGUCCUCGUUGGCc -3'
miRNA:   3'- -UCCGACACGUGCACCAGGAGCAACCG- -5'
5557 3' -56.6 NC_001806.1 + 92897 0.76 0.340343
Target:  5'- cAGGCUGcgGcCGCGUGGUCCgCGcagGGCg -3'
miRNA:   3'- -UCCGACa-C-GUGCACCAGGaGCaa-CCG- -5'
5557 3' -56.6 NC_001806.1 + 127524 0.75 0.379946
Target:  5'- cGGuGCUGUaCACGgGGUCCUCGgcgGGCu -3'
miRNA:   3'- -UC-CGACAcGUGCaCCAGGAGCaa-CCG- -5'
5557 3' -56.6 NC_001806.1 + 22279 0.7 0.656529
Target:  5'- uGGCUccagaacccGCGCGUGGUCCcCGgggacgUGGCg -3'
miRNA:   3'- uCCGAca-------CGUGCACCAGGaGCa-----ACCG- -5'
5557 3' -56.6 NC_001806.1 + 132731 0.7 0.686956
Target:  5'- cGaGCUG-GCccgGCGUGG-CCUCGgcGGCa -3'
miRNA:   3'- uC-CGACaCG---UGCACCaGGAGCaaCCG- -5'
5557 3' -56.6 NC_001806.1 + 13059 0.69 0.703033
Target:  5'- cGGCgacgGUGCGC-UGGUUCUCGgggaugaagcggGGCa -3'
miRNA:   3'- uCCGa---CACGUGcACCAGGAGCaa----------CCG- -5'
5557 3' -56.6 NC_001806.1 + 96428 0.69 0.716977
Target:  5'- gGGGUUGacGCugGgGGUCCUgG-UGGCg -3'
miRNA:   3'- -UCCGACa-CGugCaCCAGGAgCaACCG- -5'
5557 3' -56.6 NC_001806.1 + 119034 0.68 0.765445
Target:  5'- cGGcGCUGcGCcuuGCGUGGggCUCGggGGCg -3'
miRNA:   3'- -UC-CGACaCG---UGCACCagGAGCaaCCG- -5'
5557 3' -56.6 NC_001806.1 + 93208 0.68 0.784072
Target:  5'- cGGGUuugUGUGCGCGgccucaagCCUCGgcGGCg -3'
miRNA:   3'- -UCCG---ACACGUGCacca----GGAGCaaCCG- -5'
5557 3' -56.6 NC_001806.1 + 24680 0.68 0.784072
Target:  5'- gAGGCgGUGCGCGccGGcCCggccCGgUGGCg -3'
miRNA:   3'- -UCCGaCACGUGCa-CCaGGa---GCaACCG- -5'
5557 3' -56.6 NC_001806.1 + 61593 0.68 0.810972
Target:  5'- gAGGCcgucgUGUGCACGg---CCUCGUcccGGCu -3'
miRNA:   3'- -UCCG-----ACACGUGCaccaGGAGCAa--CCG- -5'
5557 3' -56.6 NC_001806.1 + 37788 0.67 0.819627
Target:  5'- gGGGCcGggGCGCGggGGUCCgcgggCGggggGGCa -3'
miRNA:   3'- -UCCGaCa-CGUGCa-CCAGGa----GCaa--CCG- -5'
5557 3' -56.6 NC_001806.1 + 14402 0.67 0.828113
Target:  5'- gGGGC-GUGCGuuaaGgGGUCCguugUGUUGGCc -3'
miRNA:   3'- -UCCGaCACGUg---CaCCAGGa---GCAACCG- -5'
5557 3' -56.6 NC_001806.1 + 13597 0.67 0.844545
Target:  5'- gAGGCUGggggGCugGaacgGGUCCg-GUaGGCc -3'
miRNA:   3'- -UCCGACa---CGugCa---CCAGGagCAaCCG- -5'
5557 3' -56.6 NC_001806.1 + 125773 0.66 0.86021
Target:  5'- --cCUG-GC-CGUGGUCCUCGaggaGGCg -3'
miRNA:   3'- uccGACaCGuGCACCAGGAGCaa--CCG- -5'
5557 3' -56.6 NC_001806.1 + 133285 0.66 0.867738
Target:  5'- cGGCUGcgGCACccacugugccUGGcCCUCGagGGCg -3'
miRNA:   3'- uCCGACa-CGUGc---------ACCaGGAGCaaCCG- -5'
5557 3' -56.6 NC_001806.1 + 31053 0.66 0.867738
Target:  5'- gGGGC---GUACGUGGUCCUgGU-GGa -3'
miRNA:   3'- -UCCGacaCGUGCACCAGGAgCAaCCg -5'
5557 3' -56.6 NC_001806.1 + 89485 0.66 0.889038
Target:  5'- cGGCaUGUGCAag-GG-CCUUGUuugucUGGCg -3'
miRNA:   3'- uCCG-ACACGUgcaCCaGGAGCA-----ACCG- -5'
5557 3' -56.6 NC_001806.1 + 35117 0.66 0.889038
Target:  5'- aAGGCgcgucccGUGgACGcGGcCCUCGguugGGCg -3'
miRNA:   3'- -UCCGa------CACgUGCaCCaGGAGCaa--CCG- -5'
5557 3' -56.6 NC_001806.1 + 34262 0.66 0.895694
Target:  5'- uGGCUGgggGCuuauAUGUggGGUCC-CGggGGCg -3'
miRNA:   3'- uCCGACa--CG----UGCA--CCAGGaGCaaCCG- -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.