miRNA display CGI


Results 1 - 20 of 35 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
30569 5' -55.6 NC_006548.1 + 1261 0.67 0.50976
Target:  5'- cGCGGUGcGGCaGGCU-UGGCuuuGAGCGUc -3'
miRNA:   3'- uCGUUAC-CCG-CCGGcAUCGu--UUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 1972 0.67 0.477728
Target:  5'- aGGgGAUcGGGCaccaGGCCGUGGCucGGCu- -3'
miRNA:   3'- -UCgUUA-CCCG----CCGGCAUCGuuUCGcg -5'
30569 5' -55.6 NC_006548.1 + 3862 0.67 0.520639
Target:  5'- uGCAGUGcauGGCGGUCuaccuGCAGgagcGGCGCg -3'
miRNA:   3'- uCGUUAC---CCGCCGGcau--CGUU----UCGCG- -5'
30569 5' -55.6 NC_006548.1 + 6308 0.69 0.396708
Target:  5'- cGGCuGUGuaCGGCCGUcGCAuugaaguGGGCGCg -3'
miRNA:   3'- -UCGuUACccGCCGGCAuCGU-------UUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 6695 0.66 0.587525
Target:  5'- uGUGAUGGGC-GCCGagagUGGCGAgaacuucugcacGGUGCu -3'
miRNA:   3'- uCGUUACCCGcCGGC----AUCGUU------------UCGCG- -5'
30569 5' -55.6 NC_006548.1 + 6904 0.66 0.576225
Target:  5'- uAGCuggGAUGGauGCaGGCgGUAGCugugcAGCGCg -3'
miRNA:   3'- -UCG---UUACC--CG-CCGgCAUCGuu---UCGCG- -5'
30569 5' -55.6 NC_006548.1 + 7621 0.66 0.561611
Target:  5'- cGCGcUGGuCGGCCGUcaugguuuccaccuGGC--GGCGCg -3'
miRNA:   3'- uCGUuACCcGCCGGCA--------------UCGuuUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 8799 0.73 0.214104
Target:  5'- gAGCuuuccGUGGGCGGCCGccaGGU--AGCGUg -3'
miRNA:   3'- -UCGu----UACCCGCCGGCa--UCGuuUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 9724 0.67 0.488299
Target:  5'- cAGCuauuucGUGGGCuuGGCCGUAGUu-GGCu- -3'
miRNA:   3'- -UCGu-----UACCCG--CCGGCAUCGuuUCGcg -5'
30569 5' -55.6 NC_006548.1 + 12642 0.69 0.360978
Target:  5'- cGCGgaaGUuGGCGGCCG-AGCGcccggcguugAAGCGCu -3'
miRNA:   3'- uCGU---UAcCCGCCGGCaUCGU----------UUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 15601 0.68 0.416866
Target:  5'- cAGCAGcccgaGGGCGGCCGacuguucGCA-GGCGUc -3'
miRNA:   3'- -UCGUUa----CCCGCCGGCau-----CGUuUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 17456 0.68 0.445706
Target:  5'- cGGCGAUGGcGCcgcagcuGGCCGaAGCGAuGCaGCc -3'
miRNA:   3'- -UCGUUACC-CG-------CCGGCaUCGUUuCG-CG- -5'
30569 5' -55.6 NC_006548.1 + 17949 0.68 0.436636
Target:  5'- gAGCcggaGGGUGGCCagccUGGC-GGGCGCg -3'
miRNA:   3'- -UCGuua-CCCGCCGGc---AUCGuUUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 18444 0.68 0.426683
Target:  5'- uGGCAGcGGcGUGGUCuucuGCAGGGCGCc -3'
miRNA:   3'- -UCGUUaCC-CGCCGGcau-CGUUUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 18879 0.66 0.576225
Target:  5'- cGCugaucgauUGGGCGGaCGUGGcCAAGGaCGUc -3'
miRNA:   3'- uCGuu------ACCCGCCgGCAUC-GUUUC-GCG- -5'
30569 5' -55.6 NC_006548.1 + 19699 0.67 0.488299
Target:  5'- cGCGuguaGGGCcuuucaGGCgCGUucGCGGAGCGCg -3'
miRNA:   3'- uCGUua--CCCG------CCG-GCAu-CGUUUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 20066 0.73 0.22612
Target:  5'- gAGCuugGGGUGGCCGaugacgAGCGgggccucgcuGAGCGCc -3'
miRNA:   3'- -UCGuuaCCCGCCGGCa-----UCGU----------UUCGCG- -5'
30569 5' -55.6 NC_006548.1 + 20896 0.68 0.456934
Target:  5'- aAGCc---GGCGGCCGaGGUGcuGCGCa -3'
miRNA:   3'- -UCGuuacCCGCCGGCaUCGUuuCGCG- -5'
30569 5' -55.6 NC_006548.1 + 21254 0.69 0.397653
Target:  5'- cGGCAGccUGGGCGGCCa-GGCcguccGAGCuGCc -3'
miRNA:   3'- -UCGUU--ACCCGCCGGcaUCGu----UUCG-CG- -5'
30569 5' -55.6 NC_006548.1 + 21443 0.79 0.085487
Target:  5'- uGCAAgugGuGGCGGCCGgcGGCAGAGuCGCg -3'
miRNA:   3'- uCGUUa--C-CCGCCGGCa-UCGUUUC-GCG- -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.