miRNA display CGI


Results 1 - 20 of 34 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
11511 5' -59.5 NC_003085.1 + 14272 0.66 0.449369
Target:  5'- --gUGCGGCcaggcugcugccgucAAGCGCC-GCGCagCCCUc -3'
miRNA:   3'- gagAUGCCG---------------UUCGCGGaCGCGa-GGGA- -5'
11511 5' -59.5 NC_003085.1 + 25042 0.66 0.445483
Target:  5'- uUCUGCGGCAGGaUGCCgccGUaCUCCg- -3'
miRNA:   3'- gAGAUGCCGUUC-GCGGa--CGcGAGGga -5'
11511 5' -59.5 NC_003085.1 + 28712 0.66 0.445482
Target:  5'- -gCUGCGcGCuGGC-CCUGCGCUUCg- -3'
miRNA:   3'- gaGAUGC-CGuUCGcGGACGCGAGGga -5'
11511 5' -59.5 NC_003085.1 + 12584 0.66 0.435848
Target:  5'- uUCUgGCGGUggAGGCuGCUguaGUGCUCCCUc -3'
miRNA:   3'- gAGA-UGCCG--UUCG-CGGa--CGCGAGGGA- -5'
11511 5' -59.5 NC_003085.1 + 5728 0.66 0.423506
Target:  5'- uCUCUccGCGGCGcucgcgcaagucacAGgGCgaGCGCUCCa- -3'
miRNA:   3'- -GAGA--UGCCGU--------------UCgCGgaCGCGAGGga -5'
11511 5' -59.5 NC_003085.1 + 40320 0.67 0.389555
Target:  5'- cCUCgcCGGCAAGgGCUgGCGCgugCCUc -3'
miRNA:   3'- -GAGauGCCGUUCgCGGaCGCGa--GGGa -5'
11511 5' -59.5 NC_003085.1 + 48913 0.67 0.389555
Target:  5'- -cCUACGGCGGguugugcuGCGCCaagGCGCUCg-- -3'
miRNA:   3'- gaGAUGCCGUU--------CGCGGa--CGCGAGgga -5'
11511 5' -59.5 NC_003085.1 + 23335 0.67 0.385993
Target:  5'- gCUCUGgcCGGcCAAGCGCCgccggccgccgagGCGCagCCCc -3'
miRNA:   3'- -GAGAU--GCC-GUUCGCGGa------------CGCGa-GGGa -5'
11511 5' -59.5 NC_003085.1 + 35910 0.67 0.371961
Target:  5'- gUCUACGaGCGccuGGCGCCggagcuucUGCGgCUCCUc -3'
miRNA:   3'- gAGAUGC-CGU---UCGCGG--------ACGC-GAGGGa -5'
11511 5' -59.5 NC_003085.1 + 41886 0.67 0.371961
Target:  5'- -gCUugGGC-GGCGCCgacaUGCGCgagCCUg -3'
miRNA:   3'- gaGAugCCGuUCGCGG----ACGCGa--GGGa -5'
11511 5' -59.5 NC_003085.1 + 3574 0.67 0.371961
Target:  5'- ---gGCGGCAAgcGCGCCU-CGCUgCCg -3'
miRNA:   3'- gagaUGCCGUU--CGCGGAcGCGAgGGa -5'
11511 5' -59.5 NC_003085.1 + 7779 0.67 0.371961
Target:  5'- aUCgucGCGGCGAGCGCauuCGCggCCCa -3'
miRNA:   3'- gAGa--UGCCGUUCGCGgacGCGa-GGGa -5'
11511 5' -59.5 NC_003085.1 + 18044 0.67 0.363369
Target:  5'- -cCUGCGGCccGCGCUgccgGCGCUUCa- -3'
miRNA:   3'- gaGAUGCCGuuCGCGGa---CGCGAGGga -5'
11511 5' -59.5 NC_003085.1 + 35787 0.67 0.360818
Target:  5'- ---gACGGCcGGUGUCcuuguccaugggguUGCGCUCCCg -3'
miRNA:   3'- gagaUGCCGuUCGCGG--------------ACGCGAGGGa -5'
11511 5' -59.5 NC_003085.1 + 21976 0.68 0.346601
Target:  5'- -gCU-CaGCAGGUGCCcggcaGCGCUCCCUu -3'
miRNA:   3'- gaGAuGcCGUUCGCGGa----CGCGAGGGA- -5'
11511 5' -59.5 NC_003085.1 + 12408 0.68 0.346601
Target:  5'- gCUCgaccCGGCGGG-GCCgcUGCGCUCCg- -3'
miRNA:   3'- -GAGau--GCCGUUCgCGG--ACGCGAGGga -5'
11511 5' -59.5 NC_003085.1 + 11999 0.68 0.330396
Target:  5'- -cCUGCGGCAgcAGCgGCCUGaCGCUggcgcaCCUg -3'
miRNA:   3'- gaGAUGCCGU--UCG-CGGAC-GCGAg-----GGA- -5'
11511 5' -59.5 NC_003085.1 + 29281 0.68 0.307147
Target:  5'- -cCUGauucaGCAGGCGCgUGCGCUCCg- -3'
miRNA:   3'- gaGAUgc---CGUUCGCGgACGCGAGGga -5'
11511 5' -59.5 NC_003085.1 + 1537 0.69 0.278126
Target:  5'- ---gGCGGCGacuuggGGUGUCaUGCGCUCCCc -3'
miRNA:   3'- gagaUGCCGU------UCGCGG-ACGCGAGGGa -5'
11511 5' -59.5 NC_003085.1 + 39769 0.69 0.273966
Target:  5'- cCUCaACGGCGgagagacgagccuccAGCGCCUGCuGCUgCUCa -3'
miRNA:   3'- -GAGaUGCCGU---------------UCGCGGACG-CGA-GGGa -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.