miRNA display CGI


Results 1 - 20 of 41 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
19277 3' -57.4 NC_004685.1 + 2833 0.66 0.649548
Target:  5'- gGGUGGGGgcGUUGGgCacGCGgGUCc -3'
miRNA:   3'- gCCACCUCuuCGACCgGcuUGCgCAG- -5'
19277 3' -57.4 NC_004685.1 + 4999 0.69 0.481661
Target:  5'- -aGUGGucgcuGGAGGCgauggUGGCCGAaacgaaggauuugGCGCGUCa -3'
miRNA:   3'- gcCACC-----UCUUCG-----ACCGGCU-------------UGCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 5406 0.76 0.186498
Target:  5'- aCGGUGGuGAAGCUGGCCGAGg----- -3'
miRNA:   3'- -GCCACCuCUUCGACCGGCUUgcgcag -5'
19277 3' -57.4 NC_004685.1 + 5443 0.66 0.691985
Target:  5'- gGGUGGAccuguaucuGCgGGCCGGcGCGgGUCa -3'
miRNA:   3'- gCCACCUcuu------CGaCCGGCU-UGCgCAG- -5'
19277 3' -57.4 NC_004685.1 + 6044 0.67 0.585613
Target:  5'- aGGUGGAGAAGUaccCCGAGCG-GUa -3'
miRNA:   3'- gCCACCUCUUCGaccGGCUUGCgCAg -5'
19277 3' -57.4 NC_004685.1 + 7402 0.68 0.554026
Target:  5'- gCGGUGcGAGGGcGCaGGCC-AGCGCGcCg -3'
miRNA:   3'- -GCCAC-CUCUU-CGaCCGGcUUGCGCaG- -5'
19277 3' -57.4 NC_004685.1 + 8106 0.67 0.585613
Target:  5'- uCGGUGGucaacgcGCUGGCCGAGgcCGgGUUc -3'
miRNA:   3'- -GCCACCucuu---CGACCGGCUU--GCgCAG- -5'
19277 3' -57.4 NC_004685.1 + 10156 0.72 0.323528
Target:  5'- ---gGGAGAAGCUGGCgu-ACGCGUUg -3'
miRNA:   3'- gccaCCUCUUCGACCGgcuUGCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 10546 0.66 0.63781
Target:  5'- gGGUGGcuucGAcaacgugGGCgGGCUGGACGUGUUc -3'
miRNA:   3'- gCCACCu---CU-------UCGaCCGGCUUGCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 10653 0.71 0.355306
Target:  5'- gGGU-GAGggGCUGGaUCGu-CGCGUCg -3'
miRNA:   3'- gCCAcCUCuuCGACC-GGCuuGCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 10730 0.66 0.691985
Target:  5'- cCGGUGGuGcGGCUGGaCaucAACGCGcUCa -3'
miRNA:   3'- -GCCACCuCuUCGACC-Ggc-UUGCGC-AG- -5'
19277 3' -57.4 NC_004685.1 + 10851 0.7 0.434482
Target:  5'- aGGUGGAGAAagcGCUGGaaG-GCGCGg- -3'
miRNA:   3'- gCCACCUCUU---CGACCggCuUGCGCag -5'
19277 3' -57.4 NC_004685.1 + 11035 0.73 0.293917
Target:  5'- uGGUGGAucgaccugccGAcGCgGGCCGAACGCauGUCg -3'
miRNA:   3'- gCCACCU----------CUuCGaCCGGCUUGCG--CAG- -5'
19277 3' -57.4 NC_004685.1 + 12425 0.69 0.482649
Target:  5'- -uGUGGAGcGGCUGugaccgcccgccGCCGAGCGCccgGUCa -3'
miRNA:   3'- gcCACCUCuUCGAC------------CGGCUUGCG---CAG- -5'
19277 3' -57.4 NC_004685.1 + 15322 0.76 0.191428
Target:  5'- --uUGGAGGAGCUGGCgUGAccgacgcuggaaGCGCGUCg -3'
miRNA:   3'- gccACCUCUUCGACCG-GCU------------UGCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 17137 0.66 0.638877
Target:  5'- gCGGccgcUGGAGuuccGGCUGaacCUGAugGCGUCg -3'
miRNA:   3'- -GCC----ACCUCu---UCGACc--GGCUugCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 17236 0.67 0.596225
Target:  5'- gCGcGUGGcGGGAGUUcGCCGAACGCa-- -3'
miRNA:   3'- -GC-CACC-UCUUCGAcCGGCUUGCGcag -5'
19277 3' -57.4 NC_004685.1 + 17849 0.71 0.388346
Target:  5'- ---gGGAGAAGCUGGUCGGccGCaagaccaGCGUCa -3'
miRNA:   3'- gccaCCUCUUCGACCGGCU--UG-------CGCAG- -5'
19277 3' -57.4 NC_004685.1 + 19172 0.66 0.669773
Target:  5'- gGGaGGAGAuggauggcuccggGGCUgccGGCCGGuuCGUGUCa -3'
miRNA:   3'- gCCaCCUCU-------------UCGA---CCGGCUu-GCGCAG- -5'
19277 3' -57.4 NC_004685.1 + 28754 0.71 0.363586
Target:  5'- uCGGUcucccaGGAucAGCUgcgccagcaGGCCGAGCGUGUCa -3'
miRNA:   3'- -GCCA------CCUcuUCGA---------CCGGCUUGCGCAG- -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.