miRNA display CGI


Results 1 - 20 of 35 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
23253 3' -58.7 NC_005259.1 + 16781 0.66 0.645956
Target:  5'- aCGA-CUCGUgGGUCGACGcGGUcGCg- -3'
miRNA:   3'- gGCUaGAGCG-CCAGCUGC-CCGuCGag -5'
23253 3' -58.7 NC_005259.1 + 32562 0.66 0.635479
Target:  5'- cCCGG-CgagCGCGGggauagCGuuGGGCAGCg- -3'
miRNA:   3'- -GGCUaGa--GCGCCa-----GCugCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 60043 0.66 0.635479
Target:  5'- aCGAUgUCGUucggGGUCuucucgggcucaGGCucGGGCGGCUCg -3'
miRNA:   3'- gGCUAgAGCG----CCAG------------CUG--CCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 62533 0.66 0.634431
Target:  5'- cUCGGcCUCGaCGGUcCGAgagauagccucacCGGGCAGCg- -3'
miRNA:   3'- -GGCUaGAGC-GCCA-GCU-------------GCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 934 0.66 0.625
Target:  5'- gCUGcgCgacaGCGGaaaaGuCGGGCAGCUCg -3'
miRNA:   3'- -GGCuaGag--CGCCag--CuGCCCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 9556 0.66 0.614527
Target:  5'- cCCGGcCUCGacCGcGUCGGCGaGguGCUCg -3'
miRNA:   3'- -GGCUaGAGC--GC-CAGCUGCcCguCGAG- -5'
23253 3' -58.7 NC_005259.1 + 11286 0.66 0.59363
Target:  5'- aUGGUCUgagGaCGGUCGACGGGCgugaGGC-Cg -3'
miRNA:   3'- gGCUAGAg--C-GCCAGCUGCCCG----UCGaG- -5'
23253 3' -58.7 NC_005259.1 + 60208 0.66 0.59363
Target:  5'- aCGAUCUCGCcgaucucGUCGGCGcugagcucgcuGGCAcGCUUg -3'
miRNA:   3'- gGCUAGAGCGc------CAGCUGC-----------CCGU-CGAG- -5'
23253 3' -58.7 NC_005259.1 + 5059 0.66 0.59363
Target:  5'- aCGGUCgagaUCGUgggccgGGUCGACGGGcCGGUg- -3'
miRNA:   3'- gGCUAG----AGCG------CCAGCUGCCC-GUCGag -5'
23253 3' -58.7 NC_005259.1 + 49695 0.66 0.589463
Target:  5'- cUCGcgCUCGCugucggugagauccGGcagauauUCGGCGGGCGGCg- -3'
miRNA:   3'- -GGCuaGAGCG--------------CC-------AGCUGCCCGUCGag -5'
23253 3' -58.7 NC_005259.1 + 7038 0.67 0.582183
Target:  5'- cCCGGcgggguuuuUCguugCGCGagauccuGUCGACGGGCGGgCUUg -3'
miRNA:   3'- -GGCU---------AGa---GCGC-------CAGCUGCCCGUC-GAG- -5'
23253 3' -58.7 NC_005259.1 + 12359 0.67 0.562524
Target:  5'- aCCGGcCUCGCGaccgagguaGUCGGCGaGaGCGGCaUCg -3'
miRNA:   3'- -GGCUaGAGCGC---------CAGCUGC-C-CGUCG-AG- -5'
23253 3' -58.7 NC_005259.1 + 41090 0.67 0.561494
Target:  5'- gCCGGUCguagUCgGCGGUCGGCGGuaugacgaugucgGCGGUg- -3'
miRNA:   3'- -GGCUAG----AG-CGCCAGCUGCC-------------CGUCGag -5'
23253 3' -58.7 NC_005259.1 + 45890 0.68 0.521788
Target:  5'- cCCGcuGUgUUGUucGGUCGGCGGGCAccGCUg -3'
miRNA:   3'- -GGC--UAgAGCG--CCAGCUGCCCGU--CGAg -5'
23253 3' -58.7 NC_005259.1 + 41493 0.68 0.511777
Target:  5'- aCGAcCUCgGCGGU-GGCGGGCAGa-- -3'
miRNA:   3'- gGCUaGAG-CGCCAgCUGCCCGUCgag -5'
23253 3' -58.7 NC_005259.1 + 17519 0.68 0.511777
Target:  5'- uCCGAgCUCGUGGgcacacagcgaCGGCGGGCAuuUCu -3'
miRNA:   3'- -GGCUaGAGCGCCa----------GCUGCCCGUcgAG- -5'
23253 3' -58.7 NC_005259.1 + 61905 0.68 0.501847
Target:  5'- -gGGUUaggUCGcCGGUCGuCGucGGCAGCUCg -3'
miRNA:   3'- ggCUAG---AGC-GCCAGCuGC--CCGUCGAG- -5'
23253 3' -58.7 NC_005259.1 + 67944 0.69 0.453565
Target:  5'- aUGAUCUUGCGGU--GCGGGUuguGCUg -3'
miRNA:   3'- gGCUAGAGCGCCAgcUGCCCGu--CGAg -5'
23253 3' -58.7 NC_005259.1 + 67821 0.69 0.434967
Target:  5'- cCCGAUCUUGUccUCGACcGGCAGCcCg -3'
miRNA:   3'- -GGCUAGAGCGccAGCUGcCCGUCGaG- -5'
23253 3' -58.7 NC_005259.1 + 10482 0.69 0.429475
Target:  5'- aCGAUCuuggggUCGUGGUUGuugggguuguccggcACGGGCcAGCUCc -3'
miRNA:   3'- gGCUAG------AGCGCCAGC---------------UGCCCG-UCGAG- -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.