miRNA display CGI


Results 1 - 17 of 17 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
12415 5' -54.3 NC_003324.1 + 43373 0.66 0.780226
Target:  5'- --aGAAGCGC-CUGCGag-GCGUCGg -3'
miRNA:   3'- ccgCUUCGCGuGAUGCagaCGCAGUa -5'
12415 5' -54.3 NC_003324.1 + 29951 0.66 0.770084
Target:  5'- gGGCGAGGgGCGucCUGCGUagcgGCGgCAg -3'
miRNA:   3'- -CCGCUUCgCGU--GAUGCAga--CGCaGUa -5'
12415 5' -54.3 NC_003324.1 + 8353 0.66 0.770084
Target:  5'- cGGCGggGa--GCUGCGUCUGU--CAUg -3'
miRNA:   3'- -CCGCuuCgcgUGAUGCAGACGcaGUA- -5'
12415 5' -54.3 NC_003324.1 + 28215 0.66 0.759797
Target:  5'- cGGCGAAGuCGCGgCUuCGUgagCcGCGUCAUc -3'
miRNA:   3'- -CCGCUUC-GCGU-GAuGCA---GaCGCAGUA- -5'
12415 5' -54.3 NC_003324.1 + 23186 0.67 0.728182
Target:  5'- cGGCG-AGCGCGgUAcCGcUCUGCaUCGUg -3'
miRNA:   3'- -CCGCuUCGCGUgAU-GC-AGACGcAGUA- -5'
12415 5' -54.3 NC_003324.1 + 34462 0.67 0.717433
Target:  5'- cGGCGGGauuuCGCGCU---UCUGCGUCGUc -3'
miRNA:   3'- -CCGCUUc---GCGUGAugcAGACGCAGUA- -5'
12415 5' -54.3 NC_003324.1 + 55537 0.67 0.705509
Target:  5'- aGCGucGAGCGCcaaaucaGCgUGCGUCaUGCGUCGg -3'
miRNA:   3'- cCGC--UUCGCG-------UG-AUGCAG-ACGCAGUa -5'
12415 5' -54.3 NC_003324.1 + 26891 0.67 0.695686
Target:  5'- cGGCGccaaagccagccAAGCGCACggccGCGUCUGCc---- -3'
miRNA:   3'- -CCGC------------UUCGCGUGa---UGCAGACGcagua -5'
12415 5' -54.3 NC_003324.1 + 13194 0.67 0.6924
Target:  5'- cGGCGAAGaUGCuaaccgucagcgagGCUGCGUCggcgGCGgUCGg -3'
miRNA:   3'- -CCGCUUC-GCG--------------UGAUGCAGa---CGC-AGUa -5'
12415 5' -54.3 NC_003324.1 + 39380 0.68 0.651531
Target:  5'- cGGCGAAGCaGC-UUGCG-CUGCGgcUCGUu -3'
miRNA:   3'- -CCGCUUCG-CGuGAUGCaGACGC--AGUA- -5'
12415 5' -54.3 NC_003324.1 + 21092 0.69 0.573936
Target:  5'- cGCGgcGCGUGCUGCGUCggcuuccaCGUCGg -3'
miRNA:   3'- cCGCuuCGCGUGAUGCAGac------GCAGUa -5'
12415 5' -54.3 NC_003324.1 + 53999 0.69 0.572837
Target:  5'- cGGCGAAGCGCACUugccGCGcugaugaUCuUGCGgCGg -3'
miRNA:   3'- -CCGCUUCGCGUGA----UGC-------AG-ACGCaGUa -5'
12415 5' -54.3 NC_003324.1 + 27858 0.69 0.552068
Target:  5'- aGGCGgcGCGCGCUuCGUCcucgcugGCGUa-- -3'
miRNA:   3'- -CCGCuuCGCGUGAuGCAGa------CGCAgua -5'
12415 5' -54.3 NC_003324.1 + 53056 0.71 0.477932
Target:  5'- uGGCGGcaGGuCGCGCU-CGUCUcggcGCGUCAc -3'
miRNA:   3'- -CCGCU--UC-GCGUGAuGCAGA----CGCAGUa -5'
12415 5' -54.3 NC_003324.1 + 18350 0.72 0.418503
Target:  5'- uGGC-AGGCcaaGCAUgauCGUCUGCGUCAUg -3'
miRNA:   3'- -CCGcUUCG---CGUGau-GCAGACGCAGUA- -5'
12415 5' -54.3 NC_003324.1 + 26182 0.79 0.157935
Target:  5'- cGGCGGucucgcuGCgGgGCUGCGUCUGCGUCGUc -3'
miRNA:   3'- -CCGCUu------CG-CgUGAUGCAGACGCAGUA- -5'
12415 5' -54.3 NC_003324.1 + 4645 1.09 0.001245
Target:  5'- cGGCGAAGCGCACUACGUCUGCGUCAUg -3'
miRNA:   3'- -CCGCUUCGCGUGAUGCAGACGCAGUA- -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.