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
28139 5' -60.3 NC_005887.1 + 11391 0.66 0.40179
Target:  5'- aCCGGCCg--UCGcGGUUGCgGCGc- -3'
miRNA:   3'- cGGCCGGacaAGCuCCAGCGgCGCuu -5'
28139 5' -60.3 NC_005887.1 + 2314 0.66 0.392768
Target:  5'- cCCGGgCU--UCGAGGUCGCUggcaucuaugGCGAu -3'
miRNA:   3'- cGGCCgGAcaAGCUCCAGCGG----------CGCUu -5'
28139 5' -60.3 NC_005887.1 + 24807 0.66 0.382998
Target:  5'- cGCCGGCCcgaagcucgGUUCGcuggaagugcgcaAGGUCacGCCGCuGGAu -3'
miRNA:   3'- -CGGCCGGa--------CAAGC-------------UCCAG--CGGCG-CUU- -5'
28139 5' -60.3 NC_005887.1 + 7334 0.66 0.358027
Target:  5'- gGCCggGGCCgaugUCGcGGUCGCUGcCGAGg -3'
miRNA:   3'- -CGG--CCGGaca-AGCuCCAGCGGC-GCUU- -5'
28139 5' -60.3 NC_005887.1 + 3020 0.66 0.349684
Target:  5'- cGCCGGCgaGgauggUCGcGGcggUGCCGCGGc -3'
miRNA:   3'- -CGGCCGgaCa----AGCuCCa--GCGGCGCUu -5'
28139 5' -60.3 NC_005887.1 + 37061 0.67 0.341481
Target:  5'- -aCGGCCUGcgCGuGcUCGCCgGCGAGc -3'
miRNA:   3'- cgGCCGGACaaGCuCcAGCGG-CGCUU- -5'
28139 5' -60.3 NC_005887.1 + 14270 0.67 0.333418
Target:  5'- cGCCGcCCUGUcCGAGGccgCGCC-CGAc -3'
miRNA:   3'- -CGGCcGGACAaGCUCCa--GCGGcGCUu -5'
28139 5' -60.3 NC_005887.1 + 40704 0.67 0.313112
Target:  5'- gGCUGGCaggaGccgaucgaagacgacUUCGAGGUCGCCGCc-- -3'
miRNA:   3'- -CGGCCGga--C---------------AAGCUCCAGCGGCGcuu -5'
28139 5' -60.3 NC_005887.1 + 13062 0.67 0.310073
Target:  5'- aGCC-GCCUGgUCcGGGUCgguGCCGCGGGu -3'
miRNA:   3'- -CGGcCGGACaAGcUCCAG---CGGCGCUU- -5'
28139 5' -60.3 NC_005887.1 + 25067 0.68 0.295213
Target:  5'- cGCUGGCCgaaaggGUgaaggUGAGGcCGCCGCc-- -3'
miRNA:   3'- -CGGCCGGa-----CAa----GCUCCaGCGGCGcuu -5'
28139 5' -60.3 NC_005887.1 + 2420 0.68 0.295213
Target:  5'- cGUCGGCCUGcgagCGcuGGUCGcCCGCcGGAu -3'
miRNA:   3'- -CGGCCGGACaa--GCu-CCAGC-GGCG-CUU- -5'
28139 5' -60.3 NC_005887.1 + 40781 0.68 0.267169
Target:  5'- cGCCGaGCCggcggUCGAGGuUCGUgGCGGc -3'
miRNA:   3'- -CGGC-CGGaca--AGCUCC-AGCGgCGCUu -5'
28139 5' -60.3 NC_005887.1 + 29761 0.68 0.260503
Target:  5'- cCCGGCgagCUGaucgCGAGGaUCGCCGCGu- -3'
miRNA:   3'- cGGCCG---GACaa--GCUCC-AGCGGCGCuu -5'
28139 5' -60.3 NC_005887.1 + 28216 0.69 0.247578
Target:  5'- aGUCGGCgUGcgaggugUUGcAGGUCGCCGCGc- -3'
miRNA:   3'- -CGGCCGgACa------AGC-UCCAGCGGCGCuu -5'
28139 5' -60.3 NC_005887.1 + 40202 0.69 0.223324
Target:  5'- cGCCGGCCaGgUCGAGGUCuuCC-CGAAa -3'
miRNA:   3'- -CGGCCGGaCaAGCUCCAGc-GGcGCUU- -5'
28139 5' -60.3 NC_005887.1 + 13326 0.7 0.206485
Target:  5'- cGCCGGCCgcaUCGcGGaucUCGCCGCGc- -3'
miRNA:   3'- -CGGCCGGacaAGCuCC---AGCGGCGCuu -5'
28139 5' -60.3 NC_005887.1 + 15513 0.71 0.176086
Target:  5'- cGCCGGCCaGUUUccGGaCGUCGCGAGg -3'
miRNA:   3'- -CGGCCGGaCAAGcuCCaGCGGCGCUU- -5'
28139 5' -60.3 NC_005887.1 + 37335 0.71 0.171424
Target:  5'- cGCCGGCaCUGgcaucGGUCGCCGCa-- -3'
miRNA:   3'- -CGGCCG-GACaagcuCCAGCGGCGcuu -5'
28139 5' -60.3 NC_005887.1 + 4365 0.73 0.134213
Target:  5'- gGCCGGCCUcggCGAGGaugucgaccUCGCgCGCGAu -3'
miRNA:   3'- -CGGCCGGAcaaGCUCC---------AGCG-GCGCUu -5'
28139 5' -60.3 NC_005887.1 + 14365 0.76 0.072447
Target:  5'- uGCCGGgcaCCUGUUCGA-GUCGCCGCu-- -3'
miRNA:   3'- -CGGCC---GGACAAGCUcCAGCGGCGcuu -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.