miRNA display CGI


Results 1 - 16 of 16 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
11961 5' -54.9 NC_003278.1 + 16545 0.66 0.644646
Target:  5'- aCUGUugaUCGUCGCUGgcGAGGauggacagccggUCGCCa -3'
miRNA:   3'- -GACGc--AGUAGCGGCuuCUCU------------AGCGGc -5'
11961 5' -54.9 NC_003278.1 + 15387 0.66 0.644646
Target:  5'- cCUGCGUUGgaugCGUCGAAGAuugCGaCCGg -3'
miRNA:   3'- -GACGCAGUa---GCGGCUUCUcuaGC-GGC- -5'
11961 5' -54.9 NC_003278.1 + 4575 0.66 0.644646
Target:  5'- -gGCGUgCAagGCgGAAGAGAUCGaCa -3'
miRNA:   3'- gaCGCA-GUagCGgCUUCUCUAGCgGc -5'
11961 5' -54.9 NC_003278.1 + 8325 0.66 0.610701
Target:  5'- aUGCGg---CGCC--AGAGGUCGUCGa -3'
miRNA:   3'- gACGCaguaGCGGcuUCUCUAGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 34719 0.66 0.609571
Target:  5'- -gGCGuaaugcuugaagaUCAUCGCCGucGAGGUgUGCCc -3'
miRNA:   3'- gaCGC-------------AGUAGCGGCuuCUCUA-GCGGc -5'
11961 5' -54.9 NC_003278.1 + 8710 0.67 0.588152
Target:  5'- -aGCGUUcgcauggacugGUCGCCGAuGGcAUCGCUGg -3'
miRNA:   3'- gaCGCAG-----------UAGCGGCUuCUcUAGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 11160 0.67 0.581414
Target:  5'- -aGCGUCuuugagguuuauaacGUUGCCGgcGAGGUUGCa- -3'
miRNA:   3'- gaCGCAG---------------UAGCGGCuuCUCUAGCGgc -5'
11961 5' -54.9 NC_003278.1 + 30343 0.67 0.532614
Target:  5'- -cGcCGUCAaCGCCGAcgcgcccGAGGUgGCCGa -3'
miRNA:   3'- gaC-GCAGUaGCGGCUu------CUCUAgCGGC- -5'
11961 5' -54.9 NC_003278.1 + 8281 0.68 0.489578
Target:  5'- -gGCGccgCAU--CCGAGGAGGUCGCUGa -3'
miRNA:   3'- gaCGCa--GUAgcGGCUUCUCUAGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 28854 0.69 0.468673
Target:  5'- gCUGC-UgAUCGCCG-AGAGugcCGCCGa -3'
miRNA:   3'- -GACGcAgUAGCGGCuUCUCua-GCGGC- -5'
11961 5' -54.9 NC_003278.1 + 4987 0.69 0.418533
Target:  5'- -gGCGggc-CGUCGAAGcGAUCGCCGa -3'
miRNA:   3'- gaCGCaguaGCGGCUUCuCUAGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 32326 0.71 0.36288
Target:  5'- -aGCGgCAUgCgGCCGAGGAuGUCGCCGa -3'
miRNA:   3'- gaCGCaGUA-G-CGGCUUCUcUAGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 22089 0.71 0.337044
Target:  5'- -cGCGUCGUCGCCGcgaccgacgaAcuGGcgCGCCGg -3'
miRNA:   3'- gaCGCAGUAGCGGC----------UucUCuaGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 26870 0.71 0.318965
Target:  5'- -cGCaUCAUCGCCGAggcgcugcgcgauggAGAGAucgacgaggccgaacUCGCCGa -3'
miRNA:   3'- gaCGcAGUAGCGGCU---------------UCUCU---------------AGCGGC- -5'
11961 5' -54.9 NC_003278.1 + 18385 0.73 0.24083
Target:  5'- aUGcCGUCAUCGUCGAAGccuAGGUCgGCCu -3'
miRNA:   3'- gAC-GCAGUAGCGGCUUC---UCUAG-CGGc -5'
11961 5' -54.9 NC_003278.1 + 6634 1.09 0.000642
Target:  5'- gCUGCGUCAUCGCCGAAGAGAUCGCCGa -3'
miRNA:   3'- -GACGCAGUAGCGGCUUCUCUAGCGGC- -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.