miRNA display CGI


Results 1 - 20 of 22 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
28397 5' -50.2 NC_005946.1 + 57890 0.66 0.984435
Target:  5'- ----uGGCCGGGggGGAgagcgCCcacAAGGu -3'
miRNA:   3'- caucuCCGGCCCuuUCUa----GGau-UUCC- -5'
28397 5' -50.2 NC_005946.1 + 76543 0.66 0.984435
Target:  5'- -cAGGGGCagaGGGGAaucAGGugUCCUcAGGGa -3'
miRNA:   3'- caUCUCCGg--CCCUU---UCU--AGGAuUUCC- -5'
28397 5' -50.2 NC_005946.1 + 36256 0.66 0.982422
Target:  5'- gGUGGcGGGUCuGGggGGAgcggCCUuGAGGa -3'
miRNA:   3'- -CAUC-UCCGGcCCuuUCUa---GGAuUUCC- -5'
28397 5' -50.2 NC_005946.1 + 13643 0.67 0.977819
Target:  5'- -cGGAGGCCaGGAAcccgagucAGGUCa-GGAGGa -3'
miRNA:   3'- caUCUCCGGcCCUU--------UCUAGgaUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 24731 0.67 0.977819
Target:  5'- -gGGAGGaUCGGGuuuugguGGAUCCgguuugGGGGGg -3'
miRNA:   3'- caUCUCC-GGCCCuu-----UCUAGGa-----UUUCC- -5'
28397 5' -50.2 NC_005946.1 + 61976 0.68 0.962518
Target:  5'- -aGGAGGCUGGGGcuGcccgcccucGUCCUGAcaaacAGGa -3'
miRNA:   3'- caUCUCCGGCCCUuuC---------UAGGAUU-----UCC- -5'
28397 5' -50.2 NC_005946.1 + 82279 0.68 0.962518
Target:  5'- -aGGAGccaCCcGGAGAGAUCuCUGAAGGc -3'
miRNA:   3'- caUCUCc--GGcCCUUUCUAG-GAUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 102871 0.68 0.950436
Target:  5'- -cAGAGGaCCGGaGGGAGcUCCUGGAu- -3'
miRNA:   3'- caUCUCC-GGCC-CUUUCuAGGAUUUcc -5'
28397 5' -50.2 NC_005946.1 + 76415 0.69 0.935998
Target:  5'- -cGGuuuGGCCGGaauGAGGggCCUAGAGGc -3'
miRNA:   3'- caUCu--CCGGCCc--UUUCuaGGAUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 85477 0.69 0.930648
Target:  5'- -gAGGGGUCGGGAGGGcgCUUAc--- -3'
miRNA:   3'- caUCUCCGGCCCUUUCuaGGAUuucc -5'
28397 5' -50.2 NC_005946.1 + 71829 0.69 0.930648
Target:  5'- -cAGAGGaCGGGAgGAGGUCCcgcGGGa -3'
miRNA:   3'- caUCUCCgGCCCU-UUCUAGGauuUCC- -5'
28397 5' -50.2 NC_005946.1 + 49376 0.7 0.919133
Target:  5'- -gAGGGGUCGGGGAcgaggaccGGGUCgUGAgucAGGa -3'
miRNA:   3'- caUCUCCGGCCCUU--------UCUAGgAUU---UCC- -5'
28397 5' -50.2 NC_005946.1 + 59601 0.7 0.906537
Target:  5'- -cAGAGGCCaaGAGGGGUCCUAu-GGc -3'
miRNA:   3'- caUCUCCGGccCUUUCUAGGAUuuCC- -5'
28397 5' -50.2 NC_005946.1 + 46840 0.7 0.899838
Target:  5'- -gAGAGcuGCCGGGAgacAGGGUCCUGGu-- -3'
miRNA:   3'- caUCUC--CGGCCCU---UUCUAGGAUUucc -5'
28397 5' -50.2 NC_005946.1 + 99176 0.7 0.892875
Target:  5'- -aAGcuGCCGGGAGAGGcgcUCCaAGAGGc -3'
miRNA:   3'- caUCucCGGCCCUUUCU---AGGaUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 75102 0.7 0.892875
Target:  5'- cGUAGAGGCCcGGggGcAUCUUAAcGGc -3'
miRNA:   3'- -CAUCUCCGGcCCuuUcUAGGAUUuCC- -5'
28397 5' -50.2 NC_005946.1 + 102915 0.71 0.885653
Target:  5'- -gAGGGGCCggcagguuucagGGGAGacagGGGUCCaGAGGGa -3'
miRNA:   3'- caUCUCCGG------------CCCUU----UCUAGGaUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 97233 0.71 0.878177
Target:  5'- -aGGGGGCUGGGGcucuGGGGUCUUGGguuuuuGGGg -3'
miRNA:   3'- caUCUCCGGCCCU----UUCUAGGAUU------UCC- -5'
28397 5' -50.2 NC_005946.1 + 48281 0.73 0.761165
Target:  5'- --uGAGGcCCGGGuAAGGGUgCUGGGGGu -3'
miRNA:   3'- cauCUCC-GGCCC-UUUCUAgGAUUUCC- -5'
28397 5' -50.2 NC_005946.1 + 72789 0.74 0.709086
Target:  5'- ---cAGGCUGGGAAAGggCCUGccGGg -3'
miRNA:   3'- caucUCCGGCCCUUUCuaGGAUuuCC- -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.