miRNA display CGI


Results 1 - 20 of 69 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
6566 3' -54.7 NC_001847.1 + 4325 0.66 0.928531
Target:  5'- uGCGGGuAGUGCUCCgccauguAGGGCGCc -3'
miRNA:   3'- gCGCUCuUCAUGGGGaccu---UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 6043 0.7 0.71654
Target:  5'- gGCGGGAGG-ACCCCggcGGu-GAGCAa -3'
miRNA:   3'- gCGCUCUUCaUGGGGa--CCuuCUCGUg -5'
6566 3' -54.7 NC_001847.1 + 8600 0.67 0.882858
Target:  5'- gCGCGAGc-GUcagccgcagcgcaaGCCCCgccGGggGAGCGg -3'
miRNA:   3'- -GCGCUCuuCA--------------UGGGGa--CCuuCUCGUg -5'
6566 3' -54.7 NC_001847.1 + 9050 0.66 0.91732
Target:  5'- gCGCGAGggG-GCaa-UGGAcuuuuGGAGCGCa -3'
miRNA:   3'- -GCGCUCuuCaUGgggACCU-----UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 12701 0.72 0.64419
Target:  5'- gGCGGGGugcaggcaggccGGUGCCUCggggUGGAAGAuGCACg -3'
miRNA:   3'- gCGCUCU------------UCAUGGGG----ACCUUCU-CGUG- -5'
6566 3' -54.7 NC_001847.1 + 13872 0.68 0.830133
Target:  5'- gGCGAGggGgggcGCCUUUGGccGGGAGCcCa -3'
miRNA:   3'- gCGCUCuuCa---UGGGGACC--UUCUCGuG- -5'
6566 3' -54.7 NC_001847.1 + 18794 0.66 0.9095
Target:  5'- aCGCacaccagcuCCCCgUGGAAGAGCACg -3'
miRNA:   3'- -GCGcucuucau-GGGG-ACCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 26126 0.67 0.891936
Target:  5'- aGCGGGGAGU-CCCaaugGGGAGGGgGu -3'
miRNA:   3'- gCGCUCUUCAuGGGga--CCUUCUCgUg -5'
6566 3' -54.7 NC_001847.1 + 26220 0.67 0.891936
Target:  5'- aGCGGGGAGU-CCCaaugGGGAGGGgGu -3'
miRNA:   3'- gCGCUCUUCAuGGGga--CCUUCUCgUg -5'
6566 3' -54.7 NC_001847.1 + 27386 0.73 0.581646
Target:  5'- gCGCGAuagcGAGGUugCUC-GGggGGGCGCu -3'
miRNA:   3'- -GCGCU----CUUCAugGGGaCCuuCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 29916 0.7 0.756438
Target:  5'- cCGCGGGggG--CCCCUcGGggGAGgAg -3'
miRNA:   3'- -GCGCUCuuCauGGGGA-CCuuCUCgUg -5'
6566 3' -54.7 NC_001847.1 + 30965 0.69 0.812661
Target:  5'- gCGCGGugcccccuAGUACCCCUGu-GGAGCAg -3'
miRNA:   3'- -GCGCUcu------UCAUGGGGACcuUCUCGUg -5'
6566 3' -54.7 NC_001847.1 + 31528 0.66 0.928531
Target:  5'- aGCGGGGAcGUGCCCCaGGcguuuGucGCGCg -3'
miRNA:   3'- gCGCUCUU-CAUGGGGaCCuu---Cu-CGUG- -5'
6566 3' -54.7 NC_001847.1 + 31970 0.67 0.870397
Target:  5'- gCGCGGGgcGgGCCCCggggcgcgaagcccgGGAgggacgcgggcguGGAGCGCg -3'
miRNA:   3'- -GCGCUCuuCaUGGGGa--------------CCU-------------UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 32055 0.68 0.820612
Target:  5'- gCGCGGGcucggcggcccccGGGcucggGCCCCUGGGcgccgggcgucGGGGCGCg -3'
miRNA:   3'- -GCGCUC-------------UUCa----UGGGGACCU-----------UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 32344 0.72 0.64419
Target:  5'- gCGCgGAGggGgcccaGCCCCcgcgcGGggGGGCGCc -3'
miRNA:   3'- -GCG-CUCuuCa----UGGGGa----CCuuCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 32870 0.68 0.846854
Target:  5'- gCGCGAGAuccUGgCgCUGGAGG-GCACg -3'
miRNA:   3'- -GCGCUCUuc-AUgGgGACCUUCuCGUG- -5'
6566 3' -54.7 NC_001847.1 + 34661 0.68 0.830133
Target:  5'- gCGcCGAGggGgcgGCCgCgcagcggcaGGAGGAGCGCu -3'
miRNA:   3'- -GC-GCUCuuCa--UGGgGa--------CCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 35327 0.66 0.92305
Target:  5'- aGCGGGc-GUGCgCCUGGAGcugccGAGCGa -3'
miRNA:   3'- gCGCUCuuCAUGgGGACCUU-----CUCGUg -5'
6566 3' -54.7 NC_001847.1 + 37203 0.69 0.794505
Target:  5'- uGCGAGGcgcccGGUGCCgCUUGGcGGcGGCGCg -3'
miRNA:   3'- gCGCUCU-----UCAUGG-GGACCuUC-UCGUG- -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.