miRNA display CGI


Results 1 - 20 of 34 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
20419 3' -51.4 NC_004688.1 + 110687 0.7 0.88642
Target:  5'- uGGCAUGGcGAUUgCGAccgccugAGAGCCaCGUGGa -3'
miRNA:   3'- -CCGUACU-CUAGgGCU-------UUUUGG-GCGCC- -5'
20419 3' -51.4 NC_004688.1 + 101961 0.66 0.985589
Target:  5'- uGGCAUGAGAgCCgaCGAGGuAACCauCGGu -3'
miRNA:   3'- -CCGUACUCUaGG--GCUUU-UUGGgcGCC- -5'
20419 3' -51.4 NC_004688.1 + 101279 0.73 0.736831
Target:  5'- gGGCAagaaUGAGGUCCUGAcguugcAGACgCUGCGGu -3'
miRNA:   3'- -CCGU----ACUCUAGGGCUu-----UUUG-GGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 98865 0.71 0.831718
Target:  5'- cGCGUGAaguggcuucGAUCCUGcGAAgcggccacgGCCCGCGGc -3'
miRNA:   3'- cCGUACU---------CUAGGGCuUUU---------UGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 96298 0.7 0.894124
Target:  5'- aGGCGaaAGGUCCCcggcc-CCCGCGGg -3'
miRNA:   3'- -CCGUacUCUAGGGcuuuuuGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 90814 0.72 0.786137
Target:  5'- gGGCGcgcUGcugccaCCGGGAGACCCGCGGa -3'
miRNA:   3'- -CCGU---ACucuag-GGCUUUUUGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 85470 0.7 0.892745
Target:  5'- uGGCGUGAaagCCCGAAuuacaguauccACCCGgGGa -3'
miRNA:   3'- -CCGUACUcuaGGGCUUuu---------UGGGCgCC- -5'
20419 3' -51.4 NC_004688.1 + 84394 0.66 0.979278
Target:  5'- aGGCAgGGGA-CCCGGccgacgcGAAugcugguCCCGUGGa -3'
miRNA:   3'- -CCGUaCUCUaGGGCU-------UUUu------GGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 76983 0.68 0.958245
Target:  5'- aGGCGUGuGGGUCCuCGG--GugCCGCa- -3'
miRNA:   3'- -CCGUAC-UCUAGG-GCUuuUugGGCGcc -5'
20419 3' -51.4 NC_004688.1 + 74374 0.68 0.949226
Target:  5'- cGGCuccacacccggGAGAUgCCGAuGAugCCGuCGGa -3'
miRNA:   3'- -CCGua---------CUCUAgGGCUuUUugGGC-GCC- -5'
20419 3' -51.4 NC_004688.1 + 73602 0.71 0.831718
Target:  5'- aGgGUGGGAUCgaugCGggGccgGGCCCGCGGg -3'
miRNA:   3'- cCgUACUCUAGg---GCuuU---UUGGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 68194 0.7 0.907362
Target:  5'- cGGCG-GAGAugUCCUGAcaggGGAAUCCGCcGGu -3'
miRNA:   3'- -CCGUaCUCU--AGGGCU----UUUUGGGCG-CC- -5'
20419 3' -51.4 NC_004688.1 + 62965 0.74 0.726634
Target:  5'- cGGCGgcgGAGAUCaCCGcgu-GCuCCGCGGu -3'
miRNA:   3'- -CCGUa--CUCUAG-GGCuuuuUG-GGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 61982 0.69 0.932897
Target:  5'- cGGCGUcccGcacgccgccaaucgaAGAUCCCGAcguuGCCgCGCGGg -3'
miRNA:   3'- -CCGUA---C---------------UCUAGGGCUuuu-UGG-GCGCC- -5'
20419 3' -51.4 NC_004688.1 + 61892 0.66 0.983545
Target:  5'- cGGCA-GAGAUCCUuggcguaGAAccGCCCGUu- -3'
miRNA:   3'- -CCGUaCUCUAGGG-------CUUuuUGGGCGcc -5'
20419 3' -51.4 NC_004688.1 + 61185 0.78 0.506894
Target:  5'- cGGCGagGAGAUCCgGAGGGugUCGUGGu -3'
miRNA:   3'- -CCGUa-CUCUAGGgCUUUUugGGCGCC- -5'
20419 3' -51.4 NC_004688.1 + 59250 0.73 0.775566
Target:  5'- cGGCAUGAG--CCCGAccucggcauggugGAGACCgaGCGGc -3'
miRNA:   3'- -CCGUACUCuaGGGCU-------------UUUUGGg-CGCC- -5'
20419 3' -51.4 NC_004688.1 + 54349 0.68 0.940948
Target:  5'- uGCAucguccUGAGAgcCCCGucGAAGGCCCaGCGGu -3'
miRNA:   3'- cCGU------ACUCUa-GGGC--UUUUUGGG-CGCC- -5'
20419 3' -51.4 NC_004688.1 + 53175 0.71 0.872427
Target:  5'- cGGCgaGUGAuGGUCCagcgCGaAGAAGCCCGCGa -3'
miRNA:   3'- -CCG--UACU-CUAGG----GC-UUUUUGGGCGCc -5'
20419 3' -51.4 NC_004688.1 + 49214 0.67 0.971703
Target:  5'- uGUcgGGGcgUCCGAAAGgauuGCCCGCa- -3'
miRNA:   3'- cCGuaCUCuaGGGCUUUU----UGGGCGcc -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.