miRNA display CGI


Results 1 - 20 of 27 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
19274 5' -52.3 NC_004685.1 + 35104 0.66 0.911237
Target:  5'- gCCAGGCGcucgGCAgcgucggcCGCGGUcaUCGGAu- -3'
miRNA:   3'- aGGUCCGCa---UGU--------GCGCCAa-AGUCUug -5'
19274 5' -52.3 NC_004685.1 + 45518 0.66 0.911237
Target:  5'- uUCCAGGCG---ACGCGGcgacUC-GAACa -3'
miRNA:   3'- -AGGUCCGCaugUGCGCCaa--AGuCUUG- -5'
19274 5' -52.3 NC_004685.1 + 56968 0.66 0.904623
Target:  5'- cUCAGcGCGUGCAC-CGGcUUCGGcGGCu -3'
miRNA:   3'- aGGUC-CGCAUGUGcGCCaAAGUC-UUG- -5'
19274 5' -52.3 NC_004685.1 + 66393 0.66 0.897735
Target:  5'- cCCgAGGCGUAgcCAUGCGaUUcCAGAACc -3'
miRNA:   3'- aGG-UCCGCAU--GUGCGCcAAaGUCUUG- -5'
19274 5' -52.3 NC_004685.1 + 50099 0.67 0.875465
Target:  5'- aCCAGcGCGUuCAucUGCGGggUguGGACg -3'
miRNA:   3'- aGGUC-CGCAuGU--GCGCCaaAguCUUG- -5'
19274 5' -52.3 NC_004685.1 + 34595 0.67 0.859335
Target:  5'- aUCCAGGCGcGCAUGUcagGGUU---GAGCg -3'
miRNA:   3'- -AGGUCCGCaUGUGCG---CCAAaguCUUG- -5'
19274 5' -52.3 NC_004685.1 + 13675 0.67 0.850906
Target:  5'- gCCGGGuCGUACuggcCGCGGgugCGGcGCa -3'
miRNA:   3'- aGGUCC-GCAUGu---GCGCCaaaGUCuUG- -5'
19274 5' -52.3 NC_004685.1 + 30485 0.68 0.805452
Target:  5'- gCCAGGCG-GCGCGUGGagcgUUcCGGggUc -3'
miRNA:   3'- aGGUCCGCaUGUGCGCCa---AA-GUCuuG- -5'
19274 5' -52.3 NC_004685.1 + 37843 0.68 0.795768
Target:  5'- cUUCAGGUggccgaGUACA-GCGGcgUCGGAGCg -3'
miRNA:   3'- -AGGUCCG------CAUGUgCGCCaaAGUCUUG- -5'
19274 5' -52.3 NC_004685.1 + 63015 0.68 0.795768
Target:  5'- gCCcGGCGUGgGCGCGGUgUCGa--- -3'
miRNA:   3'- aGGuCCGCAUgUGCGCCAaAGUcuug -5'
19274 5' -52.3 NC_004685.1 + 47534 0.69 0.785911
Target:  5'- -gUAGGUGaGCGCGCGGUgcCAGGugGCg -3'
miRNA:   3'- agGUCCGCaUGUGCGCCAaaGUCU--UG- -5'
19274 5' -52.3 NC_004685.1 + 24315 0.69 0.775892
Target:  5'- cUCguGGCGgGCAgGCGGgUUCGGcGACg -3'
miRNA:   3'- -AGguCCGCaUGUgCGCCaAAGUC-UUG- -5'
19274 5' -52.3 NC_004685.1 + 1707 0.69 0.755413
Target:  5'- aUCCAcucGGCGaAUGCGgGGUUgacgCGGAGCu -3'
miRNA:   3'- -AGGU---CCGCaUGUGCgCCAAa---GUCUUG- -5'
19274 5' -52.3 NC_004685.1 + 3360 0.69 0.730173
Target:  5'- aCCGGGCGgGCGgGCGGgucgagucgguagUUCAGcGCg -3'
miRNA:   3'- aGGUCCGCaUGUgCGCCa------------AAGUCuUG- -5'
19274 5' -52.3 NC_004685.1 + 63632 0.7 0.713018
Target:  5'- aUCCAGGCGUAC-CGC----UCGGggUa -3'
miRNA:   3'- -AGGUCCGCAUGuGCGccaaAGUCuuG- -5'
19274 5' -52.3 NC_004685.1 + 37887 0.7 0.691289
Target:  5'- gCCGGGUGUGCACGUGGaugUUgcuGGggUc -3'
miRNA:   3'- aGGUCCGCAUGUGCGCCaa-AG---UCuuG- -5'
19274 5' -52.3 NC_004685.1 + 49076 0.71 0.669329
Target:  5'- --gAGGCGUugGCGCGGUcaUAGAu- -3'
miRNA:   3'- aggUCCGCAugUGCGCCAaaGUCUug -5'
19274 5' -52.3 NC_004685.1 + 64052 0.71 0.647227
Target:  5'- gCCAGGUGUGCAuCGCGGUaccgaugaUCGaggcGAGCg -3'
miRNA:   3'- aGGUCCGCAUGU-GCGCCAa-------AGU----CUUG- -5'
19274 5' -52.3 NC_004685.1 + 28461 0.71 0.629502
Target:  5'- gCCAGGCGUACAUcacagagcaGCGGgUUCuccgcgacaccaggcAGAGCa -3'
miRNA:   3'- aGGUCCGCAUGUG---------CGCCaAAG---------------UCUUG- -5'
19274 5' -52.3 NC_004685.1 + 39587 0.71 0.625069
Target:  5'- cCCAccGGCGUACguugcgaucgGCGCGGcg-CGGAACa -3'
miRNA:   3'- aGGU--CCGCAUG----------UGCGCCaaaGUCUUG- -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.