miRNA display CGI


Results 1 - 20 of 22 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
7319 3' -51.8 NC_001900.1 + 4216 0.66 0.894413
Target:  5'- gGGUCACCGccggccGCUucGCCGGucggcAGAUGAa- -3'
miRNA:   3'- gCCAGUGGC------UGA--UGGUCu----UCUACUgc -5'
7319 3' -51.8 NC_001900.1 + 29586 0.66 0.887015
Target:  5'- gCGGUcCACCGGCaGCCgccggcccaucgGGuuGAUGAUGu -3'
miRNA:   3'- -GCCA-GUGGCUGaUGG------------UCuuCUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 15939 0.66 0.88626
Target:  5'- aGGUCuuCCGGCUGaucgccacgaagcCCAGAAGcUGAUc -3'
miRNA:   3'- gCCAGu-GGCUGAU-------------GGUCUUCuACUGc -5'
7319 3' -51.8 NC_001900.1 + 30022 0.66 0.884743
Target:  5'- cCGGUCACgucauggccucgauCGACUACCAGGcgcaGGAgcuucgcguccUGGCc -3'
miRNA:   3'- -GCCAGUG--------------GCUGAUGGUCU----UCU-----------ACUGc -5'
7319 3' -51.8 NC_001900.1 + 7137 0.66 0.879345
Target:  5'- aGGUCGCCaucgGCCGGAucGUGAUGa -3'
miRNA:   3'- gCCAGUGGcugaUGGUCUucUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 14044 0.66 0.871409
Target:  5'- -cGUCguGCCGACgUACCGGAcuGGuUGGCGa -3'
miRNA:   3'- gcCAG--UGGCUG-AUGGUCU--UCuACUGC- -5'
7319 3' -51.8 NC_001900.1 + 7449 0.67 0.846077
Target:  5'- aCGGUCgACgGAgauuggcauCUGCCGGAucccaAGAUGACc -3'
miRNA:   3'- -GCCAG-UGgCU---------GAUGGUCU-----UCUACUGc -5'
7319 3' -51.8 NC_001900.1 + 15189 0.67 0.818635
Target:  5'- gGuGUgGCCGACgcucgACCAGccGGUGGCu -3'
miRNA:   3'- gC-CAgUGGCUGa----UGGUCuuCUACUGc -5'
7319 3' -51.8 NC_001900.1 + 8024 0.68 0.7993
Target:  5'- gCGGcCACCGGCcg-CGGAguAGAUGAUGa -3'
miRNA:   3'- -GCCaGUGGCUGaugGUCU--UCUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 3174 0.68 0.789353
Target:  5'- gCGGUUgccgcuACCGACUgcucccccGCCGGggGuUGACc -3'
miRNA:   3'- -GCCAG------UGGCUGA--------UGGUCuuCuACUGc -5'
7319 3' -51.8 NC_001900.1 + 41152 0.68 0.779235
Target:  5'- aGGUCACCGGCcugGCCcgcaacgucucGGAGGAgaACGu -3'
miRNA:   3'- gCCAGUGGCUGa--UGG-----------UCUUCUacUGC- -5'
7319 3' -51.8 NC_001900.1 + 6076 0.68 0.778214
Target:  5'- aGGUCACCGGCUcgcGCCGauuccucGAcguAGcgGGCGu -3'
miRNA:   3'- gCCAGUGGCUGA---UGGU-------CU---UCuaCUGC- -5'
7319 3' -51.8 NC_001900.1 + 19420 0.69 0.73729
Target:  5'- aGG-UACCGGgUACCGGAGuccgggguGGUGACGu -3'
miRNA:   3'- gCCaGUGGCUgAUGGUCUU--------CUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 9038 0.69 0.73729
Target:  5'- aGGUCACCaagGACU-CCagcaAGAAGAUcGACGc -3'
miRNA:   3'- gCCAGUGG---CUGAuGG----UCUUCUA-CUGC- -5'
7319 3' -51.8 NC_001900.1 + 3864 0.71 0.626369
Target:  5'- aGGUCacGCCGACcGC--GAAGGUGACGa -3'
miRNA:   3'- gCCAG--UGGCUGaUGguCUUCUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 37471 0.72 0.54721
Target:  5'- gCGGUCAUCGAacgggauCUGCguGucgGAGAUGACGa -3'
miRNA:   3'- -GCCAGUGGCU-------GAUGguC---UUCUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 25689 0.73 0.494423
Target:  5'- aCGGUCACCGGCcGCUu--GGAccUGACGg -3'
miRNA:   3'- -GCCAGUGGCUGaUGGucuUCU--ACUGC- -5'
7319 3' -51.8 NC_001900.1 + 32798 0.73 0.483929
Target:  5'- aGG-CACCGACUACguCGGu-GAUGACGa -3'
miRNA:   3'- gCCaGUGGCUGAUG--GUCuuCUACUGC- -5'
7319 3' -51.8 NC_001900.1 + 3412 0.74 0.443082
Target:  5'- aGGUCGCCcGCagGCCAGggGGUGGg- -3'
miRNA:   3'- gCCAGUGGcUGa-UGGUCuuCUACUgc -5'
7319 3' -51.8 NC_001900.1 + 3723 0.74 0.441091
Target:  5'- aCGGUCACCGACacccugaacuuCCAGcucAAGGUGACc -3'
miRNA:   3'- -GCCAGUGGCUGau---------GGUC---UUCUACUGc -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.