miRNA display CGI


Results 1 - 20 of 60 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
10381 3' -55.3 NC_002687.1 + 164290 0.81 0.397498
Target:  5'- cGGCAUCGGCAcCGGCAcCGGCAuGUc- -3'
miRNA:   3'- -CCGUAGCCGUaGCCGUaGCCGU-CAuc -5'
10381 3' -55.3 NC_002687.1 + 145480 0.69 0.937551
Target:  5'- cGGCGcgcgccUCGGCGagcagaUCGGCAaguucgcguacUCGGCAGa-- -3'
miRNA:   3'- -CCGU------AGCCGU------AGCCGU-----------AGCCGUCauc -5'
10381 3' -55.3 NC_002687.1 + 215979 0.68 0.955721
Target:  5'- aGGuCGUCGGUcugacucggggugaaAUUGGCAUCGGguGcuUGGu -3'
miRNA:   3'- -CC-GUAGCCG---------------UAGCCGUAGCCguC--AUC- -5'
10381 3' -55.3 NC_002687.1 + 212326 0.66 0.989888
Target:  5'- uGGCAuccUCGGCGUCuucgGGCucgccaccGUCGacaGCGGUGGu -3'
miRNA:   3'- -CCGU---AGCCGUAG----CCG--------UAGC---CGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 100795 0.75 0.684732
Target:  5'- uGGCAUCGGCGacauuUCGGuCAcaccacUCGGCGGUc- -3'
miRNA:   3'- -CCGUAGCCGU-----AGCC-GU------AGCCGUCAuc -5'
10381 3' -55.3 NC_002687.1 + 10328 0.75 0.694377
Target:  5'- cGGCAgUGGCggCGGCAguugUGGCAGUGu -3'
miRNA:   3'- -CCGUaGCCGuaGCCGUa---GCCGUCAUc -5'
10381 3' -55.3 NC_002687.1 + 281936 0.73 0.786913
Target:  5'- aGCAUCGGUcgCGGCAggagcaggGGCGGUGc -3'
miRNA:   3'- cCGUAGCCGuaGCCGUag------CCGUCAUc -5'
10381 3' -55.3 NC_002687.1 + 226933 0.73 0.804151
Target:  5'- gGGCGUCGcccCGUCGGCuccGUCGGCugccGGUGGu -3'
miRNA:   3'- -CCGUAGCc--GUAGCCG---UAGCCG----UCAUC- -5'
10381 3' -55.3 NC_002687.1 + 280950 0.72 0.841548
Target:  5'- aGCGUCGGCGggggccuggguggCGGCAgCGGCGGccgGGg -3'
miRNA:   3'- cCGUAGCCGUa------------GCCGUaGCCGUCa--UC- -5'
10381 3' -55.3 NC_002687.1 + 252081 0.69 0.932842
Target:  5'- aGCuUUGGUuuuGUCGGCGaagaacUUGGCAGUGGa -3'
miRNA:   3'- cCGuAGCCG---UAGCCGU------AGCCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 224155 0.71 0.86687
Target:  5'- uGGCGcUGGCGcUGGCggUGGCGGUGGc -3'
miRNA:   3'- -CCGUaGCCGUaGCCGuaGCCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 224197 0.72 0.82082
Target:  5'- uGGCggUGGCggUGGCggUGGCGGUGGc -3'
miRNA:   3'- -CCGuaGCCGuaGCCGuaGCCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 72558 0.76 0.606765
Target:  5'- cGGUguGUCGGCGgcggCGGCGUCGGCAc--- -3'
miRNA:   3'- -CCG--UAGCCGUa---GCCGUAGCCGUcauc -5'
10381 3' -55.3 NC_002687.1 + 226651 0.7 0.900025
Target:  5'- uGGCAUUGGCGccCuGCAUCGGCGaggaaggaugcGUGGa -3'
miRNA:   3'- -CCGUAGCCGUa-GcCGUAGCCGU-----------CAUC- -5'
10381 3' -55.3 NC_002687.1 + 69051 0.76 0.636061
Target:  5'- cGGCggUGGCggUGGUGUCGGCGGUGc -3'
miRNA:   3'- -CCGuaGCCGuaGCCGUAGCCGUCAUc -5'
10381 3' -55.3 NC_002687.1 + 295849 0.73 0.804151
Target:  5'- cGCAUaGGCG-CGGCGUuaCGGUAGUGGg -3'
miRNA:   3'- cCGUAgCCGUaGCCGUA--GCCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 226747 0.7 0.906034
Target:  5'- gGGUucucUCGGCAgCGGCggUGGUGGUAGc -3'
miRNA:   3'- -CCGu---AGCCGUaGCCGuaGCCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 11410 0.69 0.942043
Target:  5'- cGGUAgcggUGGCAgcagCGGCAgCaGCAGUAGc -3'
miRNA:   3'- -CCGUa---GCCGUa---GCCGUaGcCGUCAUC- -5'
10381 3' -55.3 NC_002687.1 + 224455 0.75 0.684732
Target:  5'- uGGCggCGGCAgCGGCAgCGGCAGc-- -3'
miRNA:   3'- -CCGuaGCCGUaGCCGUaGCCGUCauc -5'
10381 3' -55.3 NC_002687.1 + 227211 0.73 0.7781
Target:  5'- gGGaCAUCGGCGcacacCGGCAggUCGGaCGGUAGc -3'
miRNA:   3'- -CC-GUAGCCGUa----GCCGU--AGCC-GUCAUC- -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.