miRNA display CGI


Results 1 - 20 of 57 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
27223 5' -61.2 NC_005832.1 + 5101 0.71 0.291679
Target:  5'- uCCCUCACCCUguccaagguggccaGGAuGAGCUcGGGaGGCa -3'
miRNA:   3'- uGGGAGUGGGA--------------CCU-CUCGGaCUC-CCG- -5'
27223 5' -61.2 NC_005832.1 + 6848 0.68 0.472304
Target:  5'- uCCCaCACCCUGGGGuAGUggGGGaGGCu -3'
miRNA:   3'- uGGGaGUGGGACCUC-UCGgaCUC-CCG- -5'
27223 5' -61.2 NC_005832.1 + 7251 0.72 0.267501
Target:  5'- gACCaCUUugCCUGGAGGGa--GAGGGUg -3'
miRNA:   3'- -UGG-GAGugGGACCUCUCggaCUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 7957 0.67 0.510349
Target:  5'- cACCCUCcgucccugcCCCUGaGGAGCCUGuAGGa- -3'
miRNA:   3'- -UGGGAGu--------GGGACcUCUCGGAC-UCCcg -5'
27223 5' -61.2 NC_005832.1 + 10195 0.71 0.307552
Target:  5'- cGCCuCUC-CCCUGGccuuGAGCCUGucauGGGa -3'
miRNA:   3'- -UGG-GAGuGGGACCu---CUCGGACu---CCCg -5'
27223 5' -61.2 NC_005832.1 + 10231 0.67 0.500711
Target:  5'- cGCCCUCcaggaCCUGGcuauGGCCUGGGcGGUc -3'
miRNA:   3'- -UGGGAGug---GGACCuc--UCGGACUC-CCG- -5'
27223 5' -61.2 NC_005832.1 + 11784 0.67 0.520062
Target:  5'- cCCCUgGCUCggccggGGGGAgGUCgacGAGGGCa -3'
miRNA:   3'- uGGGAgUGGGa-----CCUCU-CGGa--CUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 12575 0.69 0.400873
Target:  5'- gACCCauggGCCUUGauGAGCUUGAGGGCc -3'
miRNA:   3'- -UGGGag--UGGGACcuCUCGGACUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 14257 0.67 0.514225
Target:  5'- gUCCUCugCCUGGguuucugccaggacaAGAGUCUcGAcGGGUg -3'
miRNA:   3'- uGGGAGugGGACC---------------UCUCGGA-CU-CCCG- -5'
27223 5' -61.2 NC_005832.1 + 20478 0.69 0.417216
Target:  5'- aACCCUC-CCgUGGAGuaCCUGAcguucucGGGCa -3'
miRNA:   3'- -UGGGAGuGGgACCUCucGGACU-------CCCG- -5'
27223 5' -61.2 NC_005832.1 + 28088 0.66 0.579663
Target:  5'- gGCCCUUugCCgUGGAGG--UUGcGGGCg -3'
miRNA:   3'- -UGGGAGugGG-ACCUCUcgGACuCCCG- -5'
27223 5' -61.2 NC_005832.1 + 28186 0.74 0.210249
Target:  5'- cCCCacCACCCUGGAcaGGGCCUGAGccacGGUa -3'
miRNA:   3'- uGGGa-GUGGGACCU--CUCGGACUC----CCG- -5'
27223 5' -61.2 NC_005832.1 + 30173 0.66 0.549613
Target:  5'- uGCgCUC-CCCUGcGAG-GUUUGGGGGUu -3'
miRNA:   3'- -UGgGAGuGGGAC-CUCuCGGACUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 32151 0.67 0.529847
Target:  5'- gACCCUCccuuuCCgUGG-GAGCCgacauucagcaUGAuGGGCg -3'
miRNA:   3'- -UGGGAGu----GGgACCuCUCGG-----------ACU-CCCG- -5'
27223 5' -61.2 NC_005832.1 + 37433 0.67 0.520062
Target:  5'- uGCUCUUuuuuGCCUUGG-GAGCCUGuccGGGa -3'
miRNA:   3'- -UGGGAG----UGGGACCuCUCGGACu--CCCg -5'
27223 5' -61.2 NC_005832.1 + 39362 0.67 0.510349
Target:  5'- gGCCCagggGCCCaGGGGAGCa-GAGGGa -3'
miRNA:   3'- -UGGGag--UGGGaCCUCUCGgaCUCCCg -5'
27223 5' -61.2 NC_005832.1 + 39812 0.66 0.5696
Target:  5'- -aCC-CACCUUGGAcGAGUC-GAGGGg -3'
miRNA:   3'- ugGGaGUGGGACCU-CUCGGaCUCCCg -5'
27223 5' -61.2 NC_005832.1 + 40430 0.69 0.39833
Target:  5'- cGCCgaCAUCCUGGAGuccaacgacaccagGGCCgacauugcGAGGGCc -3'
miRNA:   3'- -UGGgaGUGGGACCUC--------------UCGGa-------CUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 40832 0.67 0.491155
Target:  5'- gACCUgggagcCACCCUGccguaGAG-GCCcGGGGGCa -3'
miRNA:   3'- -UGGGa-----GUGGGAC-----CUCuCGGaCUCCCG- -5'
27223 5' -61.2 NC_005832.1 + 41538 0.66 0.539699
Target:  5'- cGCCCUCGguagucaugcCCCUGGAcaugGAGUCUuacagcgacGAGGaGCu -3'
miRNA:   3'- -UGGGAGU----------GGGACCU----CUCGGA---------CUCC-CG- -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.