miRNA display CGI


Results 1 - 20 of 54 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
3123 3' -57 NC_001493.1 + 101917 0.66 0.88599
Target:  5'- -aCAUCGGGGGACaaugUCgCUCGGaccuCCGGc -3'
miRNA:   3'- ugGUAGCUCCUUG----AG-GAGCCcu--GGCC- -5'
3123 3' -57 NC_001493.1 + 12075 0.66 0.88599
Target:  5'- uAUCAUggaCGAGgGggUUCCUCGGGAUg-- -3'
miRNA:   3'- -UGGUA---GCUC-CuuGAGGAGCCCUGgcc -5'
3123 3' -57 NC_001493.1 + 102198 0.66 0.88599
Target:  5'- cGCUcgCGGGGAccaucucaucGCUCUcaUCGGaucucgGACCGGg -3'
miRNA:   3'- -UGGuaGCUCCU----------UGAGG--AGCC------CUGGCC- -5'
3123 3' -57 NC_001493.1 + 57816 0.66 0.88599
Target:  5'- cGCCGUCGAuuucucuauGGC-CCUCGGGAucacCCGGu -3'
miRNA:   3'- -UGGUAGCUcc-------UUGaGGAGCCCU----GGCC- -5'
3123 3' -57 NC_001493.1 + 127629 0.66 0.88599
Target:  5'- uAUCAUggaCGAGgGggUUCCUCGGGAUg-- -3'
miRNA:   3'- -UGGUA---GCUC-CuuGAGGAGCCCUGgcc -5'
3123 3' -57 NC_001493.1 + 89401 0.66 0.871974
Target:  5'- aACCAUCcggGGGGAGaagugUCUCGGGcCCGa -3'
miRNA:   3'- -UGGUAG---CUCCUUga---GGAGCCCuGGCc -5'
3123 3' -57 NC_001493.1 + 67510 0.66 0.864651
Target:  5'- uACCAUCGGGGuuggcGCUaCUCGcGGAUaaaGGa -3'
miRNA:   3'- -UGGUAGCUCCu----UGAgGAGC-CCUGg--CC- -5'
3123 3' -57 NC_001493.1 + 124513 0.66 0.857124
Target:  5'- aGCCcuUCGGGGAGaaaCCUggCGGGugUGGg -3'
miRNA:   3'- -UGGu-AGCUCCUUga-GGA--GCCCugGCC- -5'
3123 3' -57 NC_001493.1 + 8959 0.66 0.857124
Target:  5'- aGCCcuUCGGGGAGaaaCCUggCGGGugUGGg -3'
miRNA:   3'- -UGGu-AGCUCCUUga-GGA--GCCCugGCC- -5'
3123 3' -57 NC_001493.1 + 84880 0.67 0.841482
Target:  5'- ----aCGAGGGGgUCCUCGGGAUg-- -3'
miRNA:   3'- ugguaGCUCCUUgAGGAGCCCUGgcc -5'
3123 3' -57 NC_001493.1 + 84960 0.67 0.83338
Target:  5'- uUgAUCGAGGGGCUCCUCGauACgUGGu -3'
miRNA:   3'- uGgUAGCUCCUUGAGGAGCccUG-GCC- -5'
3123 3' -57 NC_001493.1 + 112868 0.67 0.83338
Target:  5'- cCCAUCGAGaAGC-CC-CGGGAUCGc -3'
miRNA:   3'- uGGUAGCUCcUUGaGGaGCCCUGGCc -5'
3123 3' -57 NC_001493.1 + 91495 0.67 0.81665
Target:  5'- -gCGUCGAGGAugU--UCGGGcuccACCGGu -3'
miRNA:   3'- ugGUAGCUCCUugAggAGCCC----UGGCC- -5'
3123 3' -57 NC_001493.1 + 84743 0.67 0.808037
Target:  5'- -aCAUCGAGGAAgccCcCCUCGGGGaugacaUGGg -3'
miRNA:   3'- ugGUAGCUCCUU---GaGGAGCCCUg-----GCC- -5'
3123 3' -57 NC_001493.1 + 9222 0.68 0.799268
Target:  5'- cGCuCAUCGGGGAgcGCUCCaugaugUCGGGAUUc- -3'
miRNA:   3'- -UG-GUAGCUCCU--UGAGG------AGCCCUGGcc -5'
3123 3' -57 NC_001493.1 + 57507 0.68 0.799268
Target:  5'- gGCCAguguccaaUCG-GGAAC-CUcgaucgucaggaUCGGGACCGGu -3'
miRNA:   3'- -UGGU--------AGCuCCUUGaGG------------AGCCCUGGCC- -5'
3123 3' -57 NC_001493.1 + 112833 0.68 0.799268
Target:  5'- gGCCAUCGGGGA---UCUCGGGcGCaGGc -3'
miRNA:   3'- -UGGUAGCUCCUugaGGAGCCC-UGgCC- -5'
3123 3' -57 NC_001493.1 + 128271 0.68 0.799268
Target:  5'- cCCA-CGGGGGAgcCUCaC-CGGGAUCGGg -3'
miRNA:   3'- uGGUaGCUCCUU--GAG-GaGCCCUGGCC- -5'
3123 3' -57 NC_001493.1 + 87684 0.68 0.799268
Target:  5'- cGCCG-CGGGGGGCaggUCC-CGGGGuagguCCGGg -3'
miRNA:   3'- -UGGUaGCUCCUUG---AGGaGCCCU-----GGCC- -5'
3123 3' -57 NC_001493.1 + 87738 0.68 0.799268
Target:  5'- cGCCG-CGGGGGGCaggUCC-CGGGGuagguCCGGg -3'
miRNA:   3'- -UGGUaGCUCCUUG---AGGaGCCCU-----GGCC- -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.