miRNA display CGI


Results 1 - 20 of 30 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
12404 5' -51.4 NC_003324.1 + 56669 1.11 0.002303
Target:  5'- gCCGUCAAUUCGUCAGCGAUAGCGGCGu -3'
miRNA:   3'- -GGCAGUUAAGCAGUCGCUAUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 13180 0.79 0.267136
Target:  5'- aCCGUCAGcgaggcugCGUCGGCGGcggucGGCGGCGg -3'
miRNA:   3'- -GGCAGUUaa------GCAGUCGCUa----UCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 18352 0.77 0.378
Target:  5'- gCGUCGgccgAUUcCGUCAGCGGUcGCGGCu -3'
miRNA:   3'- gGCAGU----UAA-GCAGUCGCUAuCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 3460 0.74 0.515868
Target:  5'- gCGUCAcgUCGauUCGGUaAUGGCGGCa -3'
miRNA:   3'- gGCAGUuaAGC--AGUCGcUAUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 41061 0.72 0.603137
Target:  5'- gCCuugCAGcgCGUCAccGUGAUAGCGGCGa -3'
miRNA:   3'- -GGca-GUUaaGCAGU--CGCUAUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 9297 0.72 0.603137
Target:  5'- aCCGagAccUCGUCAuCGGUGGCGGCa -3'
miRNA:   3'- -GGCagUuaAGCAGUcGCUAUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 20785 0.72 0.603137
Target:  5'- aCCGcCGGaaCGUUGGCGA-GGCGGCGg -3'
miRNA:   3'- -GGCaGUUaaGCAGUCGCUaUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 35448 0.72 0.636515
Target:  5'- uUCGUgCAGgaucaCGUCGGCGAUGuCGGCGa -3'
miRNA:   3'- -GGCA-GUUaa---GCAGUCGCUAUcGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 18947 0.7 0.735244
Target:  5'- aCCGUCuauauccCGUCcguGGCGAagUAGCGGCc -3'
miRNA:   3'- -GGCAGuuaa---GCAG---UCGCU--AUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 2609 0.7 0.745839
Target:  5'- uCCGUCGccuGUUCGUCGGUGGcgucaCGGCu -3'
miRNA:   3'- -GGCAGU---UAAGCAGUCGCUauc--GCCGc -5'
12404 5' -51.4 NC_003324.1 + 30327 0.7 0.755275
Target:  5'- aUCGcCGAUggUGUCGGCGGUGGCgucgcucGGCGc -3'
miRNA:   3'- -GGCaGUUAa-GCAGUCGCUAUCG-------CCGC- -5'
12404 5' -51.4 NC_003324.1 + 21388 0.7 0.766665
Target:  5'- aUCGagGAUaUCGcCGGCGA-GGCGGCGa -3'
miRNA:   3'- -GGCagUUA-AGCaGUCGCUaUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 29796 0.69 0.776871
Target:  5'- aUCGUU--UUCGaCAGCGGUAcCGGCGa -3'
miRNA:   3'- -GGCAGuuAAGCaGUCGCUAUcGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 19366 0.69 0.786924
Target:  5'- cUCGUC----CGUCAGCGAUGGaucgacgcCGGCGc -3'
miRNA:   3'- -GGCAGuuaaGCAGUCGCUAUC--------GCCGC- -5'
12404 5' -51.4 NC_003324.1 + 44574 0.69 0.786924
Target:  5'- cCCGU----UCGgCAGCGAcacGGCGGCGa -3'
miRNA:   3'- -GGCAguuaAGCaGUCGCUa--UCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 48944 0.68 0.825376
Target:  5'- gCCGUCGcUUCuUCGGCaGUcGCGGCa -3'
miRNA:   3'- -GGCAGUuAAGcAGUCGcUAuCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 29137 0.68 0.834495
Target:  5'- uCCGUCGAggaccUCGcCAGC-AUGGCGGa- -3'
miRNA:   3'- -GGCAGUUa----AGCaGUCGcUAUCGCCgc -5'
12404 5' -51.4 NC_003324.1 + 48279 0.68 0.834495
Target:  5'- cUCGUCAGUggucUCGgagaacCAGCGAacGCGGCc -3'
miRNA:   3'- -GGCAGUUA----AGCa-----GUCGCUauCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 7418 0.68 0.852071
Target:  5'- aCCG-CA--UCGUCAGCGugcccucGGCGcGCGg -3'
miRNA:   3'- -GGCaGUuaAGCAGUCGCua-----UCGC-CGC- -5'
12404 5' -51.4 NC_003324.1 + 12273 0.68 0.852071
Target:  5'- aCCGUCcggcggcUCGUuccaguccgCAGaCGGUAGCGGCu -3'
miRNA:   3'- -GGCAGuua----AGCA---------GUC-GCUAUCGCCGc -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.