miRNA display CGI


Results 1 - 19 of 19 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
5154 3' -52.8 NC_001798.1 + 38235 0.66 0.98102
Target:  5'- -----gGCAcGCGGGGUCCGUUUUggUCGu -3'
miRNA:   3'- acauaaUGU-UGCCCCGGGCAGAG--AGC- -5'
5154 3' -52.8 NC_001798.1 + 59684 0.73 0.732055
Target:  5'- cGUGgggGCGGCGGGcacGCCCGUCU-UCGg -3'
miRNA:   3'- aCAUaa-UGUUGCCC---CGGGCAGAgAGC- -5'
5154 3' -52.8 NC_001798.1 + 104724 0.71 0.817011
Target:  5'- gGUAgcggUACuGCGGGcGUCCG-CUCUCGu -3'
miRNA:   3'- aCAUa---AUGuUGCCC-CGGGCaGAGAGC- -5'
5154 3' -52.8 NC_001798.1 + 118880 0.71 0.825704
Target:  5'- ----cUGCAACGGGGauCCCGUCagcCUCGu -3'
miRNA:   3'- acauaAUGUUGCCCC--GGGCAGa--GAGC- -5'
5154 3' -52.8 NC_001798.1 + 40617 0.7 0.866294
Target:  5'- uUGUAUggGCGACuGGGUCCGcCUCUUc -3'
miRNA:   3'- -ACAUAa-UGUUGcCCCGGGCaGAGAGc -5'
5154 3' -52.8 NC_001798.1 + 59258 0.7 0.866294
Target:  5'- -----cGCAccCGGGGCCCGacggcgCUCUCGg -3'
miRNA:   3'- acauaaUGUu-GCCCCGGGCa-----GAGAGC- -5'
5154 3' -52.8 NC_001798.1 + 84742 0.7 0.866294
Target:  5'- aUGUGggGCGGCGGGGC-CGUCgggCGc -3'
miRNA:   3'- -ACAUaaUGUUGCCCCGgGCAGagaGC- -5'
5154 3' -52.8 NC_001798.1 + 118135 0.69 0.907184
Target:  5'- aGUAUcucaucUACGACGccuccccgcuaaaGGGCCUGUCUCUg- -3'
miRNA:   3'- aCAUA------AUGUUGC-------------CCCGGGCAGAGAgc -5'
5154 3' -52.8 NC_001798.1 + 122843 0.69 0.919738
Target:  5'- -----gGCGGCGGcGGCUCGUCccUCUCa -3'
miRNA:   3'- acauaaUGUUGCC-CCGGGCAG--AGAGc -5'
5154 3' -52.8 NC_001798.1 + 152305 0.69 0.919738
Target:  5'- gGUAgacucgaGACGGcGGCCCGcggUCUCUCu -3'
miRNA:   3'- aCAUaaug---UUGCC-CCGGGC---AGAGAGc -5'
5154 3' -52.8 NC_001798.1 + 68307 0.68 0.94065
Target:  5'- gGUGcagACAGCGGGGgCUGUCgUCUgGc -3'
miRNA:   3'- aCAUaa-UGUUGCCCCgGGCAG-AGAgC- -5'
5154 3' -52.8 NC_001798.1 + 36103 0.67 0.953772
Target:  5'- gGUggUGgGGgGGGGCCCGgcugCgUCUCGc -3'
miRNA:   3'- aCAuaAUgUUgCCCCGGGCa---G-AGAGC- -5'
5154 3' -52.8 NC_001798.1 + 117824 0.67 0.953772
Target:  5'- ----gUACAACGGGGCCUaUCacCUCa -3'
miRNA:   3'- acauaAUGUUGCCCCGGGcAGa-GAGc -5'
5154 3' -52.8 NC_001798.1 + 35280 0.67 0.968
Target:  5'- -----cGCgGGCGGGGCUCGggCUCUCc -3'
miRNA:   3'- acauaaUG-UUGCCCCGGGCa-GAGAGc -5'
5154 3' -52.8 NC_001798.1 + 36305 0.67 0.971006
Target:  5'- gGUGUgGCGGCGGGGCgcgggccggggCCGgggCUCGc -3'
miRNA:   3'- aCAUAaUGUUGCCCCG-----------GGCagaGAGC- -5'
5154 3' -52.8 NC_001798.1 + 150135 0.67 0.971006
Target:  5'- -----gGCcGCGGGGCCCGagUC-CGa -3'
miRNA:   3'- acauaaUGuUGCCCCGGGCagAGaGC- -5'
5154 3' -52.8 NC_001798.1 + 149060 0.66 0.9764
Target:  5'- gUGUGUUGCuguuCGGGGCC-GUgUC-CGu -3'
miRNA:   3'- -ACAUAAUGuu--GCCCCGGgCAgAGaGC- -5'
5154 3' -52.8 NC_001798.1 + 13070 0.66 0.98102
Target:  5'- cGUAcUUGCAggagGCGcGGGCCCGgugCUC-Ca -3'
miRNA:   3'- aCAU-AAUGU----UGC-CCCGGGCa--GAGaGc -5'
5154 3' -52.8 NC_001798.1 + 119091 1.08 0.006848
Target:  5'- cUGUAUUACAACGGGGCCCGUCUCUCGc -3'
miRNA:   3'- -ACAUAAUGUUGCCCCGGGCAGAGAGC- -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.