miRNA display CGI


Results 1 - 20 of 25 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
1395 3' -54.4 NC_001335.1 + 19421 0.66 0.767913
Target:  5'- uAGAGCUgcGCGAugGCGacuuccgccugCGCGGCCUg- -3'
miRNA:   3'- -UCUUGG--UGCUugCGUa----------GCGCUGGGac -5'
1395 3' -54.4 NC_001335.1 + 47508 0.66 0.767913
Target:  5'- cGGGAgUACucGCGguUCGCGGCCUg- -3'
miRNA:   3'- -UCUUgGUGcuUGCguAGCGCUGGGac -5'
1395 3' -54.4 NC_001335.1 + 6483 0.66 0.767913
Target:  5'- gGGAAUCGCGAugGCcagagccaucAUCGaCG-CCCUc -3'
miRNA:   3'- -UCUUGGUGCUugCG----------UAGC-GCuGGGAc -5'
1395 3' -54.4 NC_001335.1 + 22074 0.66 0.757625
Target:  5'- -aGGCCGaGAGCGUucuccAUCGUGACCgCUGg -3'
miRNA:   3'- ucUUGGUgCUUGCG-----UAGCGCUGG-GAC- -5'
1395 3' -54.4 NC_001335.1 + 28682 0.66 0.757625
Target:  5'- cGAACCccACGAACGCuuUC-CGACCUc- -3'
miRNA:   3'- uCUUGG--UGCUUGCGu-AGcGCUGGGac -5'
1395 3' -54.4 NC_001335.1 + 43247 0.66 0.747206
Target:  5'- -uGACCACGAcgacCGCGUCGaUGaACCCUc -3'
miRNA:   3'- ucUUGGUGCUu---GCGUAGC-GC-UGGGAc -5'
1395 3' -54.4 NC_001335.1 + 24204 0.66 0.73667
Target:  5'- -uGGCCGCGAGCGCcagcacCGCcGCUCUGu -3'
miRNA:   3'- ucUUGGUGCUUGCGua----GCGcUGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 20061 0.67 0.697938
Target:  5'- aAGGACCGCGAccCGCAUcCGUucgaagaucucaaggGGCUCUGg -3'
miRNA:   3'- -UCUUGGUGCUu-GCGUA-GCG---------------CUGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 18242 0.67 0.670514
Target:  5'- aAGGACCGCGAggagucgaagaacGCGCuguccGUCGUuGGCCgCUGa -3'
miRNA:   3'- -UCUUGGUGCU-------------UGCG-----UAGCG-CUGG-GAC- -5'
1395 3' -54.4 NC_001335.1 + 50248 0.68 0.638425
Target:  5'- cGAuACCuACGGugGCGUUGCcGCCCUu -3'
miRNA:   3'- uCU-UGG-UGCUugCGUAGCGcUGGGAc -5'
1395 3' -54.4 NC_001335.1 + 24500 0.68 0.616251
Target:  5'- --cACCAgGAAUGCcUCGgGGCCCUu -3'
miRNA:   3'- ucuUGGUgCUUGCGuAGCgCUGGGAc -5'
1395 3' -54.4 NC_001335.1 + 443 0.68 0.605181
Target:  5'- uAGGGCCGCGcACugg-CGCGGCCUUGa -3'
miRNA:   3'- -UCUUGGUGCuUGcguaGCGCUGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 24124 0.68 0.605181
Target:  5'- cAGAGCgGCGGugcugGCGC-UCGCGGCCa-- -3'
miRNA:   3'- -UCUUGgUGCU-----UGCGuAGCGCUGGgac -5'
1395 3' -54.4 NC_001335.1 + 39728 0.69 0.594133
Target:  5'- cAGcGCCGCGAGCGCcgccGUgGaCGACCgUGa -3'
miRNA:   3'- -UCuUGGUGCUUGCG----UAgC-GCUGGgAC- -5'
1395 3' -54.4 NC_001335.1 + 13573 0.69 0.583119
Target:  5'- cGGGCCGCGAccuuguuCGCGuUCGCGuagACCUUGg -3'
miRNA:   3'- uCUUGGUGCUu------GCGU-AGCGC---UGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 39808 0.69 0.572145
Target:  5'- cGGucguCCACGGcgGCGC-UCGCGGCgCUGa -3'
miRNA:   3'- -UCuu--GGUGCU--UGCGuAGCGCUGgGAC- -5'
1395 3' -54.4 NC_001335.1 + 11709 0.69 0.550357
Target:  5'- -aGGCCACGAAgauCGUCGCGAUCUUGu -3'
miRNA:   3'- ucUUGGUGCUUgc-GUAGCGCUGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 20156 0.7 0.543868
Target:  5'- cAGAGCCccuugagaucuucgaACGGAUGCggGUCGCGGuCCUUGa -3'
miRNA:   3'- -UCUUGG---------------UGCUUGCG--UAGCGCU-GGGAC- -5'
1395 3' -54.4 NC_001335.1 + 20454 0.7 0.535257
Target:  5'- cAGAGCgcaccuggcaucaACGAGgGCAUCuCGGCCCUGg -3'
miRNA:   3'- -UCUUGg------------UGCUUgCGUAGcGCUGGGAC- -5'
1395 3' -54.4 NC_001335.1 + 8248 0.71 0.446382
Target:  5'- cGAACUACG-ACGcCAUCGCGAUUCg- -3'
miRNA:   3'- uCUUGGUGCuUGC-GUAGCGCUGGGac -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.