miRNA display CGI


Results 1 - 20 of 70 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
19000 5' -60.3 NC_004684.1 + 67480 0.66 0.565703
Target:  5'- -gGCGguauuuUCGUCguGGAGCCGGacacCGGgGg -3'
miRNA:   3'- ggUGC------AGCAGguCCUCGGCCa---GCCgC- -5'
19000 5' -60.3 NC_004684.1 + 66022 0.68 0.430775
Target:  5'- aCCugGUCGagaCCGGGccggacguGcCCGGUgCGGCGg -3'
miRNA:   3'- -GGugCAGCa--GGUCCu-------C-GGCCA-GCCGC- -5'
19000 5' -60.3 NC_004684.1 + 65119 0.72 0.268688
Target:  5'- uCCGCGUCGaggUCCAGGGuGuuGGUgGGgGu -3'
miRNA:   3'- -GGUGCAGC---AGGUCCU-CggCCAgCCgC- -5'
19000 5' -60.3 NC_004684.1 + 64342 0.66 0.525564
Target:  5'- gCUugGUcaCGUCCuuGAacCCGGUCGGCGc -3'
miRNA:   3'- -GGugCA--GCAGGucCUc-GGCCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 63900 0.7 0.323964
Target:  5'- gCCAgGUgGUCCAGGuaCCGGguaaCGGCGu -3'
miRNA:   3'- -GGUgCAgCAGGUCCucGGCCa---GCCGC- -5'
19000 5' -60.3 NC_004684.1 + 63242 0.67 0.496179
Target:  5'- aCCugGUUcggaGUCU--GAGCCGGUgccCGGCGg -3'
miRNA:   3'- -GGugCAG----CAGGucCUCGGCCA---GCCGC- -5'
19000 5' -60.3 NC_004684.1 + 63037 0.66 0.525564
Target:  5'- aCCAuCGUCGgcgcgcgCCGcGcGCUGGUCGGCu -3'
miRNA:   3'- -GGU-GCAGCa------GGUcCuCGGCCAGCCGc -5'
19000 5' -60.3 NC_004684.1 + 60345 0.66 0.575871
Target:  5'- aCCGCGcguUCGgCCAGcGGuGCCaGGUCGGUc -3'
miRNA:   3'- -GGUGC---AGCaGGUC-CU-CGG-CCAGCCGc -5'
19000 5' -60.3 NC_004684.1 + 59434 0.66 0.545515
Target:  5'- gCCugG-CGgccuugcccaCCGGuGugcGCCGGUCGGCGg -3'
miRNA:   3'- -GGugCaGCa---------GGUC-Cu--CGGCCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 58819 0.69 0.404329
Target:  5'- gCCGCcUCGgaugUCCGGGAuGaugCGGUCGGCGc -3'
miRNA:   3'- -GGUGcAGC----AGGUCCU-Cg--GCCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 58205 0.68 0.458209
Target:  5'- gUCGCGUUGUUCGcGGAcCCGGccaugcUCGGCGc -3'
miRNA:   3'- -GGUGCAGCAGGU-CCUcGGCC------AGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 57952 0.66 0.58608
Target:  5'- uCCugG-CGUgCCGGGAcGCUGGcaaUCgGGCGg -3'
miRNA:   3'- -GGugCaGCA-GGUCCU-CGGCC---AG-CCGC- -5'
19000 5' -60.3 NC_004684.1 + 57399 0.67 0.50492
Target:  5'- gCCA-GUCGaCCGGGcagggcuGGCCGGggugCGGCu -3'
miRNA:   3'- -GGUgCAGCaGGUCC-------UCGGCCa---GCCGc -5'
19000 5' -60.3 NC_004684.1 + 55848 0.66 0.535507
Target:  5'- cUCAuuCGUCGUCCucuGcGGGCCGGUgcaaCGGgGa -3'
miRNA:   3'- -GGU--GCAGCAGGu--C-CUCGGCCA----GCCgC- -5'
19000 5' -60.3 NC_004684.1 + 55095 0.72 0.244026
Target:  5'- cCCugGUgcCGUUugccgCAGGAGCCguccgcuguGGUCGGCGg -3'
miRNA:   3'- -GGugCA--GCAG-----GUCCUCGG---------CCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 51783 0.67 0.505895
Target:  5'- cUCGCGguacUCGUCCAGGuAGucCCGGUCcacGGCc -3'
miRNA:   3'- -GGUGC----AGCAGGUCC-UC--GGCCAG---CCGc -5'
19000 5' -60.3 NC_004684.1 + 50590 0.68 0.439814
Target:  5'- cCUAUGcCGUCgGGucGgCGGUCGGCGg -3'
miRNA:   3'- -GGUGCaGCAGgUCcuCgGCCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 49307 0.72 0.26677
Target:  5'- gCCuuGcCGUCCAGGAucgacccgucggcgGCCauGGUCGGCGc -3'
miRNA:   3'- -GGugCaGCAGGUCCU--------------CGG--CCAGCCGC- -5'
19000 5' -60.3 NC_004684.1 + 48954 0.67 0.486548
Target:  5'- gCACGUCGgcgggCgGGGuGGCCGGggcgGGCGc -3'
miRNA:   3'- gGUGCAGCa----GgUCC-UCGGCCag--CCGC- -5'
19000 5' -60.3 NC_004684.1 + 47893 0.69 0.387277
Target:  5'- aUCAgGUCGUaggCAGGccaCGGUCGGCGg -3'
miRNA:   3'- -GGUgCAGCAg--GUCCucgGCCAGCCGC- -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.