miRNA display CGI


Results 1 - 20 of 71 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
23670 5' -60.9 NC_005261.1 + 30628 0.66 0.751703
Target:  5'- -aCGGGGacggGGACGgGGAcGGggaCGGGGa -3'
miRNA:   3'- caGCCUCag--CCUGCgCCU-CCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 58285 0.74 0.315651
Target:  5'- -aCGGGGcCGGcGCGcCGGGGGgcgCGGGGa -3'
miRNA:   3'- caGCCUCaGCC-UGC-GCCUCCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 96848 0.73 0.3226
Target:  5'- -cCGGGGUC-GACG-GGGGGcUCGGGGg -3'
miRNA:   3'- caGCCUCAGcCUGCgCCUCC-AGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 80059 0.73 0.329662
Target:  5'- -cUGGcGG-CGGGCGCGGGGGgcgUGGGGg -3'
miRNA:   3'- caGCC-UCaGCCUGCGCCUCCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 137051 0.73 0.351528
Target:  5'- -gCGGAccGUCGGcagGCGCGGAGGcgCGGGc -3'
miRNA:   3'- caGCCU--CAGCC---UGCGCCUCCa-GCCCc -5'
23670 5' -60.9 NC_005261.1 + 30568 0.73 0.351528
Target:  5'- -cCGGGGccUCGGACGgGGAcGGggaCGGGGa -3'
miRNA:   3'- caGCCUC--AGCCUGCgCCU-CCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 30451 0.72 0.366667
Target:  5'- --gGGAGgacgaGGACGgGGGGGaCGGGGg -3'
miRNA:   3'- cagCCUCag---CCUGCgCCUCCaGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 34776 0.72 0.366667
Target:  5'- cUCGGAcUCGGACuCGGAGGgcUCGGaGGa -3'
miRNA:   3'- cAGCCUcAGCCUGcGCCUCC--AGCC-CC- -5'
23670 5' -60.9 NC_005261.1 + 69301 0.72 0.366667
Target:  5'- -gCGGGGcgcCGGugGCGGcGGgagCGGGGg -3'
miRNA:   3'- caGCCUCa--GCCugCGCCuCCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 81337 0.74 0.295487
Target:  5'- cGUCGGGgccGUCGGcgGgGCGGGGGcuugCGGGGg -3'
miRNA:   3'- -CAGCCU---CAGCC--UgCGCCUCCa---GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 34826 0.74 0.295487
Target:  5'- gGUCGGAGUCGGA---GGAGucgucGUCGGGGc -3'
miRNA:   3'- -CAGCCUCAGCCUgcgCCUC-----CAGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 74894 0.74 0.291576
Target:  5'- -gCGGAGUCGGcggcccgcgcuggccGCGCGGGGGagggcgaggaCGGGGa -3'
miRNA:   3'- caGCCUCAGCC---------------UGCGCCUCCa---------GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 11466 0.86 0.053137
Target:  5'- -gCGGAG-CGGGCGCGGAGGggCGGGGc -3'
miRNA:   3'- caGCCUCaGCCUGCGCCUCCa-GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 15053 0.81 0.100613
Target:  5'- --gGGGGUCGGGguCGCGGcgGGGUCGGGGg -3'
miRNA:   3'- cagCCUCAGCCU--GCGCC--UCCAGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 32920 0.78 0.177408
Target:  5'- cGUgGGGGgcggCGGGCGgGGGGGgggCGGGGa -3'
miRNA:   3'- -CAgCCUCa---GCCUGCgCCUCCa--GCCCC- -5'
23670 5' -60.9 NC_005261.1 + 994 0.77 0.190621
Target:  5'- -gCGGAGgagaCGGGgGCGGGGGgCGGGGg -3'
miRNA:   3'- caGCCUCa---GCCUgCGCCUCCaGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 9617 0.76 0.241036
Target:  5'- -cCGGGGUgGGcAgGCGGGGGUgGGGGc -3'
miRNA:   3'- caGCCUCAgCC-UgCGCCUCCAgCCCC- -5'
23670 5' -60.9 NC_005261.1 + 110794 0.75 0.276339
Target:  5'- -cCGGGGgacggCGGGCGaGGAGG-CGGGGg -3'
miRNA:   3'- caGCCUCa----GCCUGCgCCUCCaGCCCC- -5'
23670 5' -60.9 NC_005261.1 + 13702 0.74 0.282609
Target:  5'- -gCGGGG-CGGGCuggggGCGGGGGUgGGGGu -3'
miRNA:   3'- caGCCUCaGCCUG-----CGCCUCCAgCCCC- -5'
23670 5' -60.9 NC_005261.1 + 26880 0.74 0.288991
Target:  5'- --gGGGGUgGGugGgGGGGGgCGGGGg -3'
miRNA:   3'- cagCCUCAgCCugCgCCUCCaGCCCC- -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.