miRNA display CGI


Results 1 - 20 of 30 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
27430 3' -58.8 NC_005869.1 + 21728 0.66 0.398181
Target:  5'- cCCACGCCCUCgACaugaccuucgAGGUcgacgCCAUGGa -3'
miRNA:   3'- aGGUGCGGGAGgUGg---------UCCA-----GGUACUg -5'
27430 3' -58.8 NC_005869.1 + 28535 0.66 0.388963
Target:  5'- cUCC-UGCUCaCCGCCAuGGUCCGccUGGCc -3'
miRNA:   3'- -AGGuGCGGGaGGUGGU-CCAGGU--ACUG- -5'
27430 3' -58.8 NC_005869.1 + 16488 0.66 0.388963
Target:  5'- cUCaCugGUCC-CCACCgugcAGGUCC-UGGCc -3'
miRNA:   3'- -AG-GugCGGGaGGUGG----UCCAGGuACUG- -5'
27430 3' -58.8 NC_005869.1 + 9279 0.66 0.379887
Target:  5'- gUCGCGCUCUU--UCAGGUCCugguUGGCg -3'
miRNA:   3'- aGGUGCGGGAGguGGUCCAGGu---ACUG- -5'
27430 3' -58.8 NC_005869.1 + 14247 0.66 0.370952
Target:  5'- -aCGCGCaaCUUCCGCCuGGgCUAUGACc -3'
miRNA:   3'- agGUGCG--GGAGGUGGuCCaGGUACUG- -5'
27430 3' -58.8 NC_005869.1 + 31217 0.66 0.370952
Target:  5'- aUCC-CGCUCUggcagcaCACCAGGUCCAc--- -3'
miRNA:   3'- -AGGuGCGGGAg------GUGGUCCAGGUacug -5'
27430 3' -58.8 NC_005869.1 + 21860 0.66 0.362163
Target:  5'- -gCACGCCCuucUCCGCCGGGaacgCCAc--- -3'
miRNA:   3'- agGUGCGGG---AGGUGGUCCa---GGUacug -5'
27430 3' -58.8 NC_005869.1 + 25573 0.66 0.362163
Target:  5'- gCCGCGCcacCCUCCGCCuccAGGgcaCCAcccagGACg -3'
miRNA:   3'- aGGUGCG---GGAGGUGG---UCCa--GGUa----CUG- -5'
27430 3' -58.8 NC_005869.1 + 27189 0.67 0.353519
Target:  5'- cUCGCGCCCUcCCACgAGcUgUAUGACu -3'
miRNA:   3'- aGGUGCGGGA-GGUGgUCcAgGUACUG- -5'
27430 3' -58.8 NC_005869.1 + 27258 0.67 0.345022
Target:  5'- cUUCAuCGgCCUCCugCGGGagccccucuacgUCUAUGACa -3'
miRNA:   3'- -AGGU-GCgGGAGGugGUCC------------AGGUACUG- -5'
27430 3' -58.8 NC_005869.1 + 9651 0.67 0.345022
Target:  5'- --gGCGgCCUCCugCAGGaCC-UGGCg -3'
miRNA:   3'- aggUGCgGGAGGugGUCCaGGuACUG- -5'
27430 3' -58.8 NC_005869.1 + 27365 0.67 0.336673
Target:  5'- aCCGCGCCCUggCCGCCcg--CCGcUGGCa -3'
miRNA:   3'- aGGUGCGGGA--GGUGGuccaGGU-ACUG- -5'
27430 3' -58.8 NC_005869.1 + 22527 0.67 0.336673
Target:  5'- cUCCuCGCCCUCCccgGCCAGcGcCCGgcgGAg -3'
miRNA:   3'- -AGGuGCGGGAGG---UGGUC-CaGGUa--CUg -5'
27430 3' -58.8 NC_005869.1 + 25733 0.67 0.328472
Target:  5'- -gCugGCCCgcgCCGCCGGGcCCAc--- -3'
miRNA:   3'- agGugCGGGa--GGUGGUCCaGGUacug -5'
27430 3' -58.8 NC_005869.1 + 9954 0.68 0.304761
Target:  5'- aCCACGCgCUCgGCCAGG---AUGGCc -3'
miRNA:   3'- aGGUGCGgGAGgUGGUCCaggUACUG- -5'
27430 3' -58.8 NC_005869.1 + 22460 0.68 0.289696
Target:  5'- uUCCGCGCCCaCCGCCAcG-CCAUcauggaacaGACa -3'
miRNA:   3'- -AGGUGCGGGaGGUGGUcCaGGUA---------CUG- -5'
27430 3' -58.8 NC_005869.1 + 7116 0.68 0.282386
Target:  5'- cCCugGCUCUCCuucuuccaCAGGUCCuuguUGAg -3'
miRNA:   3'- aGGugCGGGAGGug------GUCCAGGu---ACUg -5'
27430 3' -58.8 NC_005869.1 + 33446 0.68 0.275222
Target:  5'- gUCGCGCagaUCCACCGGGUCCc---- -3'
miRNA:   3'- aGGUGCGgg-AGGUGGUCCAGGuacug -5'
27430 3' -58.8 NC_005869.1 + 8816 0.69 0.261332
Target:  5'- gCU-CGUCCUCguCCAGGUCCccGUGGCc -3'
miRNA:   3'- aGGuGCGGGAGguGGUCCAGG--UACUG- -5'
27430 3' -58.8 NC_005869.1 + 19585 0.69 0.231556
Target:  5'- gUCCAgcagcgcggggauguUGCCCcCCGCCAGGUCCucguaggucagcAUGAa -3'
miRNA:   3'- -AGGU---------------GCGGGaGGUGGUCCAGG------------UACUg -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.