miRNA display CGI


Results 1 - 20 of 79 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
19712 3' -56.8 NC_004686.1 + 139 0.73 0.276523
Target:  5'- cGGUcgCgGguGCCGAACCGCcaggcgacGCgGCCg -3'
miRNA:   3'- -CCAaaGgCguCGGCUUGGCG--------CGgUGG- -5'
19712 3' -56.8 NC_004686.1 + 787 0.7 0.412839
Target:  5'- cGGUUgccgcuuugUCCGCGGCggucaGGugUGCGCCuCCu -3'
miRNA:   3'- -CCAA---------AGGCGUCGg----CUugGCGCGGuGG- -5'
19712 3' -56.8 NC_004686.1 + 1543 0.67 0.604931
Target:  5'- -----aUGCAGCCGGGCCGCagauGCgGCUc -3'
miRNA:   3'- ccaaagGCGUCGGCUUGGCG----CGgUGG- -5'
19712 3' -56.8 NC_004686.1 + 2100 0.66 0.637219
Target:  5'- cGGUguaUGCGGCgauGACCGCucGCCGCCc -3'
miRNA:   3'- -CCAaagGCGUCGgc-UUGGCG--CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 2822 0.7 0.440851
Target:  5'- --gUUCCGguGCCGGAUCcgguGCGUCAgCa -3'
miRNA:   3'- ccaAAGGCguCGGCUUGG----CGCGGUgG- -5'
19712 3' -56.8 NC_004686.1 + 3904 0.66 0.665177
Target:  5'- uGGcaUUCGCAGCCGAggggGCCGaucugcaacgcugGCUGCCu -3'
miRNA:   3'- -CCaaAGGCGUCGGCU----UGGCg------------CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 4917 0.66 0.637219
Target:  5'- --gUUCCaGCGGUCccaucCCGCGCCGCa -3'
miRNA:   3'- ccaAAGG-CGUCGGcuu--GGCGCGGUGg -5'
19712 3' -56.8 NC_004686.1 + 5548 0.66 0.647985
Target:  5'- ---gUCCGUGGCgGcccggaggcuguGACCGCGUCgACCg -3'
miRNA:   3'- ccaaAGGCGUCGgC------------UUGGCGCGG-UGG- -5'
19712 3' -56.8 NC_004686.1 + 6321 0.69 0.460113
Target:  5'- ---aUUCGCGGUCGAcACCGUGgCCugCg -3'
miRNA:   3'- ccaaAGGCGUCGGCU-UGGCGC-GGugG- -5'
19712 3' -56.8 NC_004686.1 + 6608 0.69 0.488812
Target:  5'- --cUUCCGCAuCCGAGgaugcccCCGUGCCAUUg -3'
miRNA:   3'- ccaAAGGCGUcGGCUU-------GGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 7088 0.69 0.478818
Target:  5'- gGGUUUgCGguGUCGAGCCgGCagggugcacggcgGCCACa -3'
miRNA:   3'- -CCAAAgGCguCGGCUUGG-CG-------------CGGUGg -5'
19712 3' -56.8 NC_004686.1 + 8290 0.78 0.132893
Target:  5'- uGGuUUUCCGUGGCUGGGCCuG-GCCACCg -3'
miRNA:   3'- -CC-AAAGGCGUCGGCUUGG-CgCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 9596 0.72 0.35195
Target:  5'- aGGUgcuacugCCGCuGUCGGGCUGCucGCUACCu -3'
miRNA:   3'- -CCAaa-----GGCGuCGGCUUGGCG--CGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 12144 0.66 0.689748
Target:  5'- aGUUUCgGC-GCCGGcggucagGCCGCGggGCCa -3'
miRNA:   3'- cCAAAGgCGuCGGCU-------UGGCGCggUGG- -5'
19712 3' -56.8 NC_004686.1 + 13243 0.69 0.460113
Target:  5'- uGGUgucUUCGCGGCgaGAGCCGCcgagagcccgggGCCugCg -3'
miRNA:   3'- -CCAa--AGGCGUCGg-CUUGGCG------------CGGugG- -5'
19712 3' -56.8 NC_004686.1 + 13401 0.75 0.228264
Target:  5'- aGGcgUCCGCcuGCCuggcuuccaacuccuGAGcCCGCGCCGCCa -3'
miRNA:   3'- -CCaaAGGCGu-CGG---------------CUU-GGCGCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 13670 0.66 0.637219
Target:  5'- gGGUgacUgUGCAGuuGAuucaGCCGCGgCGCUg -3'
miRNA:   3'- -CCAa--AgGCGUCggCU----UGGCGCgGUGG- -5'
19712 3' -56.8 NC_004686.1 + 14510 0.71 0.394786
Target:  5'- ---aUCCGgAGCCGuggcGCgGCGCCaACCu -3'
miRNA:   3'- ccaaAGGCgUCGGCu---UGgCGCGG-UGG- -5'
19712 3' -56.8 NC_004686.1 + 16456 0.66 0.647985
Target:  5'- aGGcg-CCGUcGUCGAGCaggCGgGCCGCCu -3'
miRNA:   3'- -CCaaaGGCGuCGGCUUG---GCgCGGUGG- -5'
19712 3' -56.8 NC_004686.1 + 16515 0.79 0.112743
Target:  5'- uGGgcuucgCCGCGGCUGAuGCCGUGCCGCa -3'
miRNA:   3'- -CCaaa---GGCGUCGGCU-UGGCGCGGUGg -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.