miRNA display CGI


Results 1 - 18 of 18 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
7331 5' -51.4 NC_001900.1 + 33764 0.66 0.889851
Target:  5'- uCCAcGaUGuCCUcgGCGUC-UCGGCCGa -3'
miRNA:   3'- -GGU-CaACuGGAaaUGCAGcAGCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 23878 0.66 0.874402
Target:  5'- aUAGccGACCggagccCGUCGUCGGaCCAc -3'
miRNA:   3'- gGUCaaCUGGaaau--GCAGCAGCC-GGU- -5'
7331 5' -51.4 NC_001900.1 + 23150 0.67 0.866279
Target:  5'- cCCGGgcgagGACCagacCGUCGUUGaGCCGg -3'
miRNA:   3'- -GGUCaa---CUGGaaauGCAGCAGC-CGGU- -5'
7331 5' -51.4 NC_001900.1 + 23488 0.67 0.866279
Target:  5'- aCCAGaagaUGACgCU---CGUCGUCGGCa- -3'
miRNA:   3'- -GGUCa---ACUG-GAaauGCAGCAGCCGgu -5'
7331 5' -51.4 NC_001900.1 + 31299 0.67 0.852753
Target:  5'- cCCGGUUcgucgcugacggcacGGCCaagaaggAgGUCGUCGGCCc -3'
miRNA:   3'- -GGUCAA---------------CUGGaaa----UgCAGCAGCCGGu -5'
7331 5' -51.4 NC_001900.1 + 35847 0.67 0.849273
Target:  5'- gCAGgacGACCUggagcagUACGUCGgCGGCg- -3'
miRNA:   3'- gGUCaa-CUGGAa------AUGCAGCaGCCGgu -5'
7331 5' -51.4 NC_001900.1 + 38933 0.67 0.831309
Target:  5'- gCAGUUGAacCCUUggAgGUCGUaacugacugCGGCCGa -3'
miRNA:   3'- gGUCAACU--GGAAa-UgCAGCA---------GCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 23956 0.68 0.821992
Target:  5'- cUCGGUccACCUcgaaaccgGCGUCGUCGGCa- -3'
miRNA:   3'- -GGUCAacUGGAaa------UGCAGCAGCCGgu -5'
7331 5' -51.4 NC_001900.1 + 23534 0.68 0.792827
Target:  5'- gUCGG-UGACCgucuucUCGUCGGCCGg -3'
miRNA:   3'- -GGUCaACUGGaaaugcAGCAGCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 41472 0.69 0.772483
Target:  5'- -aAGUUGACCUgguagaaGUCGUCGGagaCGu -3'
miRNA:   3'- ggUCAACUGGAaaug---CAGCAGCCg--GU- -5'
7331 5' -51.4 NC_001900.1 + 6412 0.69 0.762077
Target:  5'- gCUGGUUGACCUUgacaGCGgcCGU-GGCCGg -3'
miRNA:   3'- -GGUCAACUGGAAa---UGCa-GCAgCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 30595 0.69 0.751531
Target:  5'- aCCAGaucUUGGCC--UugGUCGUCuugugcuccuuGGCCAg -3'
miRNA:   3'- -GGUC---AACUGGaaAugCAGCAG-----------CCGGU- -5'
7331 5' -51.4 NC_001900.1 + 5818 0.7 0.686004
Target:  5'- gCCAgGUUGuACCg--GCGUCGgCGGUCAu -3'
miRNA:   3'- -GGU-CAAC-UGGaaaUGCAGCaGCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 33669 0.7 0.679301
Target:  5'- --cGUUGGCCgugaagcucacaGCGUUGUCGGCCc -3'
miRNA:   3'- gguCAACUGGaaa---------UGCAGCAGCCGGu -5'
7331 5' -51.4 NC_001900.1 + 31298 0.71 0.629786
Target:  5'- aCCgaAGUUGAUCgugGCGUUGUCGGUg- -3'
miRNA:   3'- -GG--UCAACUGGaaaUGCAGCAGCCGgu -5'
7331 5' -51.4 NC_001900.1 + 28192 0.74 0.486711
Target:  5'- gCgAGcUGGCCUUgugcgAUGUCGUUGGCCu -3'
miRNA:   3'- -GgUCaACUGGAAa----UGCAGCAGCCGGu -5'
7331 5' -51.4 NC_001900.1 + 588 0.77 0.335193
Target:  5'- -aGGUUGGCCggaacgUAgGUUGUCGGCCGc -3'
miRNA:   3'- ggUCAACUGGaa----AUgCAGCAGCCGGU- -5'
7331 5' -51.4 NC_001900.1 + 28927 0.99 0.012293
Target:  5'- cCCAGUUGACCUUUAC-UCGUCGGCCAu -3'
miRNA:   3'- -GGUCAACUGGAAAUGcAGCAGCCGGU- -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.