miRNA display CGI


Results 1 - 20 of 28 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
12385 5' -57.1 NC_003324.1 + 2822 0.66 0.62211
Target:  5'- aAAACCugCGGua--UUUUCGCCGgGCg -3'
miRNA:   3'- -UUUGGugGUCuccgAAGAGCGGCgCG- -5'
12385 5' -57.1 NC_003324.1 + 1621 0.66 0.611151
Target:  5'- --uUCAUCGG-GGCcauagCGCCGCGCa -3'
miRNA:   3'- uuuGGUGGUCuCCGaaga-GCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 39663 0.66 0.611151
Target:  5'- aGGACgAuCCGGAGGCUggugCUgaCGUgGCGCc -3'
miRNA:   3'- -UUUGgU-GGUCUCCGAa---GA--GCGgCGCG- -5'
12385 5' -57.1 NC_003324.1 + 14662 0.66 0.611151
Target:  5'- -cGCCGCCGGccGCUUg-CGCCG-GCa -3'
miRNA:   3'- uuUGGUGGUCucCGAAgaGCGGCgCG- -5'
12385 5' -57.1 NC_003324.1 + 24261 0.66 0.611151
Target:  5'- -uGCUgAUCAGAGGcCUUCUCGUCGaucuggGCa -3'
miRNA:   3'- uuUGG-UGGUCUCC-GAAGAGCGGCg-----CG- -5'
12385 5' -57.1 NC_003324.1 + 20199 0.66 0.600209
Target:  5'- uAGCUcUCAacGGCUUCUCGUCGaCGCg -3'
miRNA:   3'- uUUGGuGGUcuCCGAAGAGCGGC-GCG- -5'
12385 5' -57.1 NC_003324.1 + 15473 0.66 0.600209
Target:  5'- cGAGCuCACCGc--GCUUCugcUCGCUGCGCu -3'
miRNA:   3'- -UUUG-GUGGUcucCGAAG---AGCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 34524 0.66 0.589294
Target:  5'- -uGCCGCCAGcGGaa--UCGCCcaGCGCc -3'
miRNA:   3'- uuUGGUGGUCuCCgaagAGCGG--CGCG- -5'
12385 5' -57.1 NC_003324.1 + 56785 0.66 0.589294
Target:  5'- gGAGCCgguaagcguGCCGGAGGgUgucgagCUUGCCGCu- -3'
miRNA:   3'- -UUUGG---------UGGUCUCCgAa-----GAGCGGCGcg -5'
12385 5' -57.1 NC_003324.1 + 12088 0.66 0.578416
Target:  5'- cAGCaaaGCCGGAGaGCgugaccgUCUgGCCGgGCu -3'
miRNA:   3'- uUUGg--UGGUCUC-CGa------AGAgCGGCgCG- -5'
12385 5' -57.1 NC_003324.1 + 12201 0.67 0.556798
Target:  5'- cGAGCCGCCGGAcGGU--CUCGCgGgucuCGCa -3'
miRNA:   3'- -UUUGGUGGUCU-CCGaaGAGCGgC----GCG- -5'
12385 5' -57.1 NC_003324.1 + 54008 0.67 0.556798
Target:  5'- --uUCugCAGGcGGCgaagcgcaCUUGCCGCGCu -3'
miRNA:   3'- uuuGGugGUCU-CCGaa------GAGCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 48401 0.67 0.552501
Target:  5'- aGAGCCACCcccucgcgcaGCUUCUugcgaaUGCCGCGCu -3'
miRNA:   3'- -UUUGGUGGucuc------CGAAGA------GCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 15822 0.67 0.514335
Target:  5'- gAGACCACCGucAGGUguaacgaUCUUGUCGUGCu -3'
miRNA:   3'- -UUUGGUGGUc-UCCGa------AGAGCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 23025 0.68 0.473251
Target:  5'- -cGCCACCGGAGacugggacGCgguuaUUGUCGCGCa -3'
miRNA:   3'- uuUGGUGGUCUC--------CGaag--AGCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 53791 0.68 0.473251
Target:  5'- -cGCCACgGugaacuucugguGGGGCUgcaccaaggUCUCGCCGgGCu -3'
miRNA:   3'- uuUGGUGgU------------CUCCGA---------AGAGCGGCgCG- -5'
12385 5' -57.1 NC_003324.1 + 32300 0.68 0.470235
Target:  5'- -cGCUACCAGcguuucgcccgauuGGGCcUCgaagaUGCCGCGCa -3'
miRNA:   3'- uuUGGUGGUC--------------UCCGaAGa----GCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 54048 0.69 0.433883
Target:  5'- ---gCGCgCAGAGGC-UUUCGCUGCGg -3'
miRNA:   3'- uuugGUG-GUCUCCGaAGAGCGGCGCg -5'
12385 5' -57.1 NC_003324.1 + 21933 0.69 0.405639
Target:  5'- aAGGCCGCCgaGGAGGCccg--GCUGCGCg -3'
miRNA:   3'- -UUUGGUGG--UCUCCGaagagCGGCGCG- -5'
12385 5' -57.1 NC_003324.1 + 28533 0.7 0.344434
Target:  5'- gAGACCACU-GAGGCc---UGCCGCGCu -3'
miRNA:   3'- -UUUGGUGGuCUCCGaagaGCGGCGCG- -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.