miRNA display CGI


Results 1 - 20 of 67 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
20486 3' -56.4 NC_004688.1 + 108561 0.65 0.878449
Target:  5'- --cUCGaCCGCGCCGAgucggagcgcaagaUCgGCuacacguuGAGUGCg -3'
miRNA:   3'- gguAGC-GGCGCGGCU--------------AGgCG--------CUUACG- -5'
20486 3' -56.4 NC_004688.1 + 44071 0.66 0.874121
Target:  5'- -uGUCGUCGCGCCaGAcguaggcaaaggccaCCGCGGAcugGCu -3'
miRNA:   3'- ggUAGCGGCGCGG-CUa--------------GGCGCUUa--CG- -5'
20486 3' -56.4 NC_004688.1 + 7823 0.66 0.873392
Target:  5'- gCCGaaGCCGCcuucUCGAUCgGCGAcAUGCc -3'
miRNA:   3'- -GGUagCGGCGc---GGCUAGgCGCU-UACG- -5'
20486 3' -56.4 NC_004688.1 + 100650 0.66 0.873392
Target:  5'- -aAUCGCCGUGCUGA--CGUGggUaacugGCg -3'
miRNA:   3'- ggUAGCGGCGCGGCUagGCGCuuA-----CG- -5'
20486 3' -56.4 NC_004688.1 + 70224 0.66 0.865983
Target:  5'- -uGUCGCCaGCGCUccgCCGgGcGUGCg -3'
miRNA:   3'- ggUAGCGG-CGCGGcuaGGCgCuUACG- -5'
20486 3' -56.4 NC_004688.1 + 39829 0.66 0.865983
Target:  5'- --uUUGCCGUGuCCGGUgCCGUGGuUGUc -3'
miRNA:   3'- gguAGCGGCGC-GGCUA-GGCGCUuACG- -5'
20486 3' -56.4 NC_004688.1 + 89794 0.66 0.865983
Target:  5'- gUCGggGCCGCGCCag-CCGgGAG-GCu -3'
miRNA:   3'- -GGUagCGGCGCGGcuaGGCgCUUaCG- -5'
20486 3' -56.4 NC_004688.1 + 78698 0.66 0.865983
Target:  5'- aCGUgGCCGCaUCGAUCgGCGGGa-- -3'
miRNA:   3'- gGUAgCGGCGcGGCUAGgCGCUUacg -5'
20486 3' -56.4 NC_004688.1 + 73946 0.66 0.865983
Target:  5'- uCCGagGCCGCccaGCCcucggCCGCGAG-GCg -3'
miRNA:   3'- -GGUagCGGCG---CGGcua--GGCGCUUaCG- -5'
20486 3' -56.4 NC_004688.1 + 10024 0.66 0.865983
Target:  5'- aCCGcCGCCGCGCgCaGUgCGCGcaguucuuccaGGUGCu -3'
miRNA:   3'- -GGUaGCGGCGCG-GcUAgGCGC-----------UUACG- -5'
20486 3' -56.4 NC_004688.1 + 22989 0.66 0.858362
Target:  5'- uCCAUCGCCGaUGCCa--UCGUGAugaGCa -3'
miRNA:   3'- -GGUAGCGGC-GCGGcuaGGCGCUua-CG- -5'
20486 3' -56.4 NC_004688.1 + 70922 0.66 0.856035
Target:  5'- gUCAUUGCCGCGCUuguagaugauuugaGAUCCGggcUGAagGUu -3'
miRNA:   3'- -GGUAGCGGCGCGG--------------CUAGGC---GCUuaCG- -5'
20486 3' -56.4 NC_004688.1 + 17613 0.66 0.850535
Target:  5'- aCAUCGUCG-GCgCGAUCgGCGcg-GCc -3'
miRNA:   3'- gGUAGCGGCgCG-GCUAGgCGCuuaCG- -5'
20486 3' -56.4 NC_004688.1 + 49140 0.66 0.850535
Target:  5'- gCCG-CGCCGCgGCCGA--CGUGAuuuugGCg -3'
miRNA:   3'- -GGUaGCGGCG-CGGCUagGCGCUua---CG- -5'
20486 3' -56.4 NC_004688.1 + 51862 0.66 0.850535
Target:  5'- gUCGUCGaUgGCGUaugGAcCUGCGAAUGCg -3'
miRNA:   3'- -GGUAGC-GgCGCGg--CUaGGCGCUUACG- -5'
20486 3' -56.4 NC_004688.1 + 103497 0.66 0.850535
Target:  5'- aCGUgGagaGCGCCGccgagaccAUCCGCGAAUacGCg -3'
miRNA:   3'- gGUAgCgg-CGCGGC--------UAGGCGCUUA--CG- -5'
20486 3' -56.4 NC_004688.1 + 98519 0.66 0.850535
Target:  5'- aCCAUUGCaUGCGgCG-UCCGuCGAG-GCg -3'
miRNA:   3'- -GGUAGCG-GCGCgGCuAGGC-GCUUaCG- -5'
20486 3' -56.4 NC_004688.1 + 92059 0.66 0.849742
Target:  5'- cCCAuUCGugggcgaugagauCCGCGCCGGgggCCGCcccAUGCc -3'
miRNA:   3'- -GGU-AGC-------------GGCGCGGCUa--GGCGcu-UACG- -5'
20486 3' -56.4 NC_004688.1 + 20677 0.66 0.842509
Target:  5'- -uGUCGCCGUcgaaGCCGAU-CGCGAu--- -3'
miRNA:   3'- ggUAGCGGCG----CGGCUAgGCGCUuacg -5'
20486 3' -56.4 NC_004688.1 + 63899 0.67 0.834292
Target:  5'- gCGU-GCCGUaacaagGCCGA-CCGCGGugaAUGCg -3'
miRNA:   3'- gGUAgCGGCG------CGGCUaGGCGCU---UACG- -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.