miRNA display CGI


Results 1 - 13 of 13 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
31617 3' -56.8 NC_006879.1 + 7850 0.66 0.490028
Target:  5'- uGUCCAGGGAGUcgAGGGCggCCGC-GCUgAg -3'
miRNA:   3'- -CGGGUUUUUCA--UCCCG--GGCGuCGGgU- -5'
31617 3' -56.8 NC_006879.1 + 21175 0.66 0.479445
Target:  5'- cGCCCGAcgucaUGGGaGCCCuGCAGCUg- -3'
miRNA:   3'- -CGGGUUuuuc-AUCC-CGGG-CGUCGGgu -5'
31617 3' -56.8 NC_006879.1 + 5912 0.66 0.458625
Target:  5'- cCCCG---AGUGGcGGUgCGUGGCCCGc -3'
miRNA:   3'- cGGGUuuuUCAUC-CCGgGCGUCGGGU- -5'
31617 3' -56.8 NC_006879.1 + 10517 0.66 0.448397
Target:  5'- aGCCCGAcGAGcguucUGGGGUgaGCccGGCCCGc -3'
miRNA:   3'- -CGGGUUuUUC-----AUCCCGggCG--UCGGGU- -5'
31617 3' -56.8 NC_006879.1 + 19982 0.66 0.446367
Target:  5'- uGCCCcucucgcauGGUGGGuCCCauGUAGCCCAc -3'
miRNA:   3'- -CGGGuuuu-----UCAUCCcGGG--CGUCGGGU- -5'
31617 3' -56.8 NC_006879.1 + 13408 0.66 0.438297
Target:  5'- cCCCGAcGGAGgcGGGCaCGCAGaCCAu -3'
miRNA:   3'- cGGGUU-UUUCauCCCGgGCGUCgGGU- -5'
31617 3' -56.8 NC_006879.1 + 22462 0.67 0.428329
Target:  5'- cGCCCGAGGaucuGGaGGGGCCUGacCGGCgCGa -3'
miRNA:   3'- -CGGGUUUU----UCaUCCCGGGC--GUCGgGU- -5'
31617 3' -56.8 NC_006879.1 + 9537 0.67 0.398299
Target:  5'- gGCCgAGAGGGUcGuGGCCgaccuagcguugcUGCAGCCCu -3'
miRNA:   3'- -CGGgUUUUUCAuC-CCGG-------------GCGUCGGGu -5'
31617 3' -56.8 NC_006879.1 + 20627 0.68 0.371458
Target:  5'- aCCCAAAcGGUccaGGGGCCCcucuCGGCCg- -3'
miRNA:   3'- cGGGUUUuUCA---UCCCGGGc---GUCGGgu -5'
31617 3' -56.8 NC_006879.1 + 25446 0.69 0.304022
Target:  5'- aCCCGccuAGUu-GGCCCGCcGCCCAg -3'
miRNA:   3'- cGGGUuuuUCAucCCGGGCGuCGGGU- -5'
31617 3' -56.8 NC_006879.1 + 14993 0.71 0.219338
Target:  5'- gGCCCGGAGGGUAGGcagaagggcuaugcGCCgCGCuGCCg- -3'
miRNA:   3'- -CGGGUUUUUCAUCC--------------CGG-GCGuCGGgu -5'
31617 3' -56.8 NC_006879.1 + 19573 0.73 0.158306
Target:  5'- aGCCgGAguagacGAAGUAGGGgucgaaCCCGgAGCCCAg -3'
miRNA:   3'- -CGGgUU------UUUCAUCCC------GGGCgUCGGGU- -5'
31617 3' -56.8 NC_006879.1 + 20400 1.1 0.000258
Target:  5'- uGCCCAAAAAGUAGGGCCCGCAGCCCAg -3'
miRNA:   3'- -CGGGUUUUUCAUCCCGGGCGUCGGGU- -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.