miRNA display CGI


Results 1 - 20 of 96 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
14619 3' -49.6 NC_003521.1 + 223418 1.1 0.015599
Target:  5'- cCCGGCGCGGCGUCAAAGCUUAAUAUAg -3'
miRNA:   3'- -GGCCGCGCCGCAGUUUCGAAUUAUAU- -5'
14619 3' -49.6 NC_003521.1 + 111245 0.79 0.721549
Target:  5'- gCCGGCGCGGCGcggCGGAGCa------- -3'
miRNA:   3'- -GGCCGCGCCGCa--GUUUCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 68503 0.78 0.7386
Target:  5'- aCGGCcgaggccugcgccaGCGGCGUCAAGGCU--GUGUGg -3'
miRNA:   3'- gGCCG--------------CGCCGCAGUUUCGAauUAUAU- -5'
14619 3' -49.6 NC_003521.1 + 136773 0.74 0.914187
Target:  5'- gCUGGCGCagacGGCGUCGGAGCacugcGUGUAc -3'
miRNA:   3'- -GGCCGCG----CCGCAGUUUCGaau--UAUAU- -5'
14619 3' -49.6 NC_003521.1 + 26559 0.74 0.920043
Target:  5'- gCCaGCGaCGGCGUCAGGGCgau-UGUGa -3'
miRNA:   3'- -GGcCGC-GCCGCAGUUUCGaauuAUAU- -5'
14619 3' -49.6 NC_003521.1 + 166216 0.73 0.931009
Target:  5'- uUGGCGCGGCGgCGAGGCg------- -3'
miRNA:   3'- gGCCGCGCCGCaGUUUCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 42572 0.73 0.949546
Target:  5'- aCGGCuaucgcuGCGGCGUCAGccAGCUauUGAUAg- -3'
miRNA:   3'- gGCCG-------CGCCGCAGUU--UCGA--AUUAUau -5'
14619 3' -49.6 NC_003521.1 + 13802 0.73 0.949972
Target:  5'- -aGGCGCGuuuccacgucaGCGUCGGGGUUUGGUGUc -3'
miRNA:   3'- ggCCGCGC-----------CGCAGUUUCGAAUUAUAu -5'
14619 3' -49.6 NC_003521.1 + 53353 0.73 0.949972
Target:  5'- gCCGGCGCGGCGgCGGAGg-------- -3'
miRNA:   3'- -GGCCGCGCCGCaGUUUCgaauuauau -5'
14619 3' -49.6 NC_003521.1 + 19064 0.73 0.949972
Target:  5'- gCGGCGCGGCG-CAGAcGCUg------ -3'
miRNA:   3'- gGCCGCGCCGCaGUUU-CGAauuauau -5'
14619 3' -49.6 NC_003521.1 + 13988 0.72 0.954104
Target:  5'- cCCGGCGCGGCGgc-GGGCg------- -3'
miRNA:   3'- -GGCCGCGCCGCaguUUCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 170117 0.72 0.957999
Target:  5'- uCCGGCGCaGGCGcCGAcgcAGCUUGcgGc- -3'
miRNA:   3'- -GGCCGCG-CCGCaGUU---UCGAAUuaUau -5'
14619 3' -49.6 NC_003521.1 + 74589 0.71 0.971307
Target:  5'- gCGGCGCGGCGUCccgcGGCc------- -3'
miRNA:   3'- gGCCGCGCCGCAGuu--UCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 155384 0.71 0.976681
Target:  5'- gCCGGCGCGGaCGaCGAGGCc------- -3'
miRNA:   3'- -GGCCGCGCC-GCaGUUUCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 182987 0.71 0.979072
Target:  5'- aCGGCGUucGGCGUCAccggccGAGCUUcAUGc- -3'
miRNA:   3'- gGCCGCG--CCGCAGU------UUCGAAuUAUau -5'
14619 3' -49.6 NC_003521.1 + 102956 0.71 0.979072
Target:  5'- uCCaGGCGCucgGGCGUCGGGGCUc------ -3'
miRNA:   3'- -GG-CCGCG---CCGCAGUUUCGAauuauau -5'
14619 3' -49.6 NC_003521.1 + 216206 0.71 0.979072
Target:  5'- aCCGGCGCGGgGUCcuccuGGCa------- -3'
miRNA:   3'- -GGCCGCGCCgCAGuu---UCGaauuauau -5'
14619 3' -49.6 NC_003521.1 + 89758 0.71 0.979072
Target:  5'- gCCGGCGCGGC--CGAAGaCgagAGUAUGu -3'
miRNA:   3'- -GGCCGCGCCGcaGUUUC-Gaa-UUAUAU- -5'
14619 3' -49.6 NC_003521.1 + 198856 0.7 0.983302
Target:  5'- -aGGCGCGGCgGUCGAacAGCUg------ -3'
miRNA:   3'- ggCCGCGCCG-CAGUU--UCGAauuauau -5'
14619 3' -49.6 NC_003521.1 + 167778 0.7 0.983302
Target:  5'- aUGGCGUGGuCGUCGAAGUUg------ -3'
miRNA:   3'- gGCCGCGCC-GCAGUUUCGAauuauau -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.