miRNA display CGI


Results 1 - 20 of 54 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
2884 3' -54.3 NC_001493.1 + 7890 0.72 0.682765
Target:  5'- cAAUUUUCGGGUCacggggCGACCGGuguccAUCCCu -3'
miRNA:   3'- uUUAGAGGCCCAGa-----GCUGGUC-----UAGGG- -5'
2884 3' -54.3 NC_001493.1 + 10592 0.69 0.839069
Target:  5'- gAGAUUUUCGGGaccugaccacgcggCUCGAuCCGGGUCCUc -3'
miRNA:   3'- -UUUAGAGGCCCa-------------GAGCU-GGUCUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 10599 0.68 0.88243
Target:  5'- aAAAUCUCUaaGUCUCgGACCGGGgcugugCCCa -3'
miRNA:   3'- -UUUAGAGGccCAGAG-CUGGUCUa-----GGG- -5'
2884 3' -54.3 NC_001493.1 + 10627 1.02 0.011293
Target:  5'- aAAAUCUCCGGGUCUCGACCcGAUCCCg -3'
miRNA:   3'- -UUUAGAGGCCCAGAGCUGGuCUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 10676 0.71 0.743531
Target:  5'- aAAAUCUCCaaGUCUCgGACCGGGgcugugCCCa -3'
miRNA:   3'- -UUUAGAGGccCAGAG-CUGGUCUa-----GGG- -5'
2884 3' -54.3 NC_001493.1 + 10704 0.79 0.294951
Target:  5'- aAAAUCUCUaaGUCUCGACCcGAUCCCg -3'
miRNA:   3'- -UUUAGAGGccCAGAGCUGGuCUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 10732 1.1 0.002996
Target:  5'- aAAAUCUCCGGGUCUCGACCAGAUCCCg -3'
miRNA:   3'- -UUUAGAGGCCCAGAGCUGGUCUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 10788 0.66 0.946235
Target:  5'- -cGUC-CCGaGaGUCUCGACCgcGGAggaCCCg -3'
miRNA:   3'- uuUAGaGGC-C-CAGAGCUGG--UCUa--GGG- -5'
2884 3' -54.3 NC_001493.1 + 10829 0.73 0.630841
Target:  5'- --cUCUCCGGGUgUCGAacCCGGGgagCUCg -3'
miRNA:   3'- uuuAGAGGCCCAgAGCU--GGUCUa--GGG- -5'
2884 3' -54.3 NC_001493.1 + 11315 0.66 0.931262
Target:  5'- cAGAUCgUCCgccucggGGGUCaUCGAgcCCuGGUCCCg -3'
miRNA:   3'- -UUUAG-AGG-------CCCAG-AGCU--GGuCUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 15048 0.72 0.693056
Target:  5'- ---cCUCCGGGgccccucgcgUCUCGACgAGAgcaCCCa -3'
miRNA:   3'- uuuaGAGGCCC----------AGAGCUGgUCUa--GGG- -5'
2884 3' -54.3 NC_001493.1 + 16100 0.66 0.936845
Target:  5'- -cGUC-CCGGGgCUCGACCgcucgAGAcUCCUc -3'
miRNA:   3'- uuUAGaGGCCCaGAGCUGG-----UCU-AGGG- -5'
2884 3' -54.3 NC_001493.1 + 22495 0.71 0.703295
Target:  5'- uGAAUUUUCGGGUCUCaucaCAGggCCCg -3'
miRNA:   3'- -UUUAGAGGCCCAGAGcug-GUCuaGGG- -5'
2884 3' -54.3 NC_001493.1 + 23375 0.66 0.92647
Target:  5'- -uGUCUUCGGuGgcCUCGGCCAGcAUCUg -3'
miRNA:   3'- uuUAGAGGCC-Ca-GAGCUGGUC-UAGGg -5'
2884 3' -54.3 NC_001493.1 + 23686 0.69 0.835723
Target:  5'- gGGAUC-CCGGGcgggaUCaugacCGACCAGuAUCCCg -3'
miRNA:   3'- -UUUAGaGGCCC-----AGa----GCUGGUC-UAGGG- -5'
2884 3' -54.3 NC_001493.1 + 25458 0.66 0.941662
Target:  5'- cGGUCUCCGGGgggaUCaACCGcgugcGAUCCUc -3'
miRNA:   3'- uUUAGAGGCCCag--AGcUGGU-----CUAGGG- -5'
2884 3' -54.3 NC_001493.1 + 26376 0.68 0.88243
Target:  5'- -----cCCGGGUUUCGGCCccagCCCg -3'
miRNA:   3'- uuuagaGGCCCAGAGCUGGucuaGGG- -5'
2884 3' -54.3 NC_001493.1 + 32513 0.67 0.920912
Target:  5'- uAGGUUga-GGGUCUCGACC---UCCCu -3'
miRNA:   3'- -UUUAGaggCCCAGAGCUGGucuAGGG- -5'
2884 3' -54.3 NC_001493.1 + 37553 0.66 0.92647
Target:  5'- -------gGGGUCgUCGACCGGGUCgCCc -3'
miRNA:   3'- uuuagaggCCCAG-AGCUGGUCUAG-GG- -5'
2884 3' -54.3 NC_001493.1 + 37619 0.75 0.516002
Target:  5'- ---gCUCCGGGcacgcucaaguaCUCGcACCAGAUCCCc -3'
miRNA:   3'- uuuaGAGGCCCa-----------GAGC-UGGUCUAGGG- -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.