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
30418 5' -54.8 NC_006548.1 + 4677 0.74 0.245228
Target:  5'- uGCGCGGGGaa-AGCUUGGU-GCCCa -3'
miRNA:   3'- cCGUGCCUUgugUCGAACCAuCGGGg -5'
30418 5' -54.8 NC_006548.1 + 18568 0.75 0.197438
Target:  5'- gGGCAU-GAGCGCAGCUggcgUGGaAGCCCg -3'
miRNA:   3'- -CCGUGcCUUGUGUCGA----ACCaUCGGGg -5'
30418 5' -54.8 NC_006548.1 + 6857 0.66 0.6071
Target:  5'- uGGUuCGGAugcaggcuGCGCAGUUcGGUgaccGGCUCCg -3'
miRNA:   3'- -CCGuGCCU--------UGUGUCGAaCCA----UCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 20903 0.67 0.595818
Target:  5'- cGGCcgaGGugcuGCGCAGCUUGcUGGCCg- -3'
miRNA:   3'- -CCGug-CCu---UGUGUCGAACcAUCGGgg -5'
30418 5' -54.8 NC_006548.1 + 8215 0.67 0.594692
Target:  5'- cGGCagcucuacuGCGGAuuuCGGUUUGGUGGCaguacguCCCa -3'
miRNA:   3'- -CCG---------UGCCUuguGUCGAACCAUCG-------GGG- -5'
30418 5' -54.8 NC_006548.1 + 16193 0.67 0.584569
Target:  5'- cGGCGCGGuGCGCGGUaauaacgacuUUGGaGGCUa- -3'
miRNA:   3'- -CCGUGCCuUGUGUCG----------AACCaUCGGgg -5'
30418 5' -54.8 NC_006548.1 + 9662 0.67 0.584569
Target:  5'- gGGUGCGGGGCAUGGC--GGU-GUUCCu -3'
miRNA:   3'- -CCGUGCCUUGUGUCGaaCCAuCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 21852 0.67 0.584569
Target:  5'- aGGCcCGGAcCuccaAGC-UGGUcuucAGCCCCa -3'
miRNA:   3'- -CCGuGCCUuGug--UCGaACCA----UCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 4303 0.67 0.551109
Target:  5'- aGCACGGuGCAgAGCggcagaugGGUAGCUa- -3'
miRNA:   3'- cCGUGCCuUGUgUCGaa------CCAUCGGgg -5'
30418 5' -54.8 NC_006548.1 + 28035 0.68 0.540079
Target:  5'- cGGCGCGGcccuGCAggaGGCcuaUGGUccAGCCUCa -3'
miRNA:   3'- -CCGUGCCu---UGUg--UCGa--ACCA--UCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 30515 0.69 0.475734
Target:  5'- uGGCAUGGAAC-CAGCcgau--GCCCUa -3'
miRNA:   3'- -CCGUGCCUUGuGUCGaaccauCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 30718 0.7 0.42516
Target:  5'- cGGCAcCGGGGCAuCAGC-----AGCCCCu -3'
miRNA:   3'- -CCGU-GCCUUGU-GUCGaaccaUCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 12944 0.72 0.310036
Target:  5'- aGCGCGGugcugugcGGCGCAGCcgUGGUgaccacGGCUCCg -3'
miRNA:   3'- cCGUGCC--------UUGUGUCGa-ACCA------UCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 28826 0.66 0.663645
Target:  5'- cGGCGC-GAGCACgGGCUUccagGGCUCCu -3'
miRNA:   3'- -CCGUGcCUUGUG-UCGAAcca-UCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 19028 0.66 0.641043
Target:  5'- uGGCGCcu-GCACGGUggaGGUGGCgUCCa -3'
miRNA:   3'- -CCGUGccuUGUGUCGaa-CCAUCG-GGG- -5'
30418 5' -54.8 NC_006548.1 + 31223 0.66 0.641043
Target:  5'- uGCGUGGAcGCGCAGCUUGGcgAGCa-- -3'
miRNA:   3'- cCGUGCCU-UGUGUCGAACCa-UCGggg -5'
30418 5' -54.8 NC_006548.1 + 34459 0.66 0.641043
Target:  5'- aGUACcaGGAGCaACAGCgaGGUGccGCCCa -3'
miRNA:   3'- cCGUG--CCUUG-UGUCGaaCCAU--CGGGg -5'
30418 5' -54.8 NC_006548.1 + 36197 0.66 0.629723
Target:  5'- aGCGCGGug-AUGGCgaUGGU-GCCCCu -3'
miRNA:   3'- cCGUGCCuugUGUCGa-ACCAuCGGGG- -5'
30418 5' -54.8 NC_006548.1 + 20079 0.67 0.58457
Target:  5'- aGGC-CGGcGCAUugAGCUuggGGUGGCCg- -3'
miRNA:   3'- -CCGuGCCuUGUG--UCGAa--CCAUCGGgg -5'
30418 5' -54.8 NC_006548.1 + 14796 0.67 0.562206
Target:  5'- cGCuuccCGGAuCGCuuGCUUGGUcGCCUCg -3'
miRNA:   3'- cCGu---GCCUuGUGu-CGAACCAuCGGGG- -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.