miRNA display CGI


Results 1 - 20 of 65 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
21336 5' -54.5 NC_004778.3 + 124349 0.69 0.778351
Target:  5'- aGGCGGCGACCGCGAagaccggaccgGCGgCGGCugACGGg -3'
miRNA:   3'- -UUGUUGCUGGCGCU-----------CGC-GUUG--UGCUa -5'
21336 5' -54.5 NC_004778.3 + 121764 0.7 0.718488
Target:  5'- cGGCGugGACCGCGcGCuGCAGCA-GAa -3'
miRNA:   3'- -UUGUugCUGGCGCuCG-CGUUGUgCUa -5'
21336 5' -54.5 NC_004778.3 + 119968 0.66 0.908231
Target:  5'- --uGACGACgCGCaggcaGAGCGCAACcccuACGAUu -3'
miRNA:   3'- uugUUGCUG-GCG-----CUCGCGUUG----UGCUA- -5'
21336 5' -54.5 NC_004778.3 + 118930 0.67 0.873585
Target:  5'- cGCGcCGGCCGCGccgcgcccgaAGCGUGGCACGu- -3'
miRNA:   3'- uUGUuGCUGGCGC----------UCGCGUUGUGCua -5'
21336 5' -54.5 NC_004778.3 + 114775 0.67 0.858071
Target:  5'- --uGAUGACUGCGGcguGaCGCAACAUGAUa -3'
miRNA:   3'- uugUUGCUGGCGCU---C-GCGUUGUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 114316 0.66 0.920348
Target:  5'- uGAUAAUGGCCGCGuGCGCcugcuCGCu-- -3'
miRNA:   3'- -UUGUUGCUGGCGCuCGCGuu---GUGcua -5'
21336 5' -54.5 NC_004778.3 + 113926 0.66 0.914417
Target:  5'- cGCucGCGGagaGCGAGCGCGgcggauggcGCACGAUg -3'
miRNA:   3'- uUGu-UGCUgg-CGCUCGCGU---------UGUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 110102 0.66 0.914417
Target:  5'- aAACGGCGugCGCGccgAGCGCuuggGCACc-- -3'
miRNA:   3'- -UUGUUGCugGCGC---UCGCGu---UGUGcua -5'
21336 5' -54.5 NC_004778.3 + 108249 0.7 0.738869
Target:  5'- gAGCAGCG-CCGUGuGCuuGACACGGUa -3'
miRNA:   3'- -UUGUUGCuGGCGCuCGcgUUGUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 107922 0.8 0.240808
Target:  5'- cGCGACGccgcCCGaCGAGCGCGACGCGGUg -3'
miRNA:   3'- uUGUUGCu---GGC-GCUCGCGUUGUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 98720 0.66 0.914417
Target:  5'- uGGCAGcCGGCCGCGGcCGCAGCGu--- -3'
miRNA:   3'- -UUGUU-GCUGGCGCUcGCGUUGUgcua -5'
21336 5' -54.5 NC_004778.3 + 96609 0.71 0.687349
Target:  5'- cGCGGCGGCCGCuAGCGCGAaaaGAa -3'
miRNA:   3'- uUGUUGCUGGCGcUCGCGUUgugCUa -5'
21336 5' -54.5 NC_004778.3 + 95824 1.04 0.006136
Target:  5'- aAACAACGACCGCGAGCGCAACACGAUg -3'
miRNA:   3'- -UUGUUGCUGGCGCUCGCGUUGUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 90560 0.78 0.300235
Target:  5'- uGGCAGCGcucGCCGcCGAGCGCAGCGcCGAUu -3'
miRNA:   3'- -UUGUUGC---UGGC-GCUCGCGUUGU-GCUA- -5'
21336 5' -54.5 NC_004778.3 + 85659 0.66 0.908231
Target:  5'- aGACAAUGAgC-CGAG-GCGGCGCGAc -3'
miRNA:   3'- -UUGUUGCUgGcGCUCgCGUUGUGCUa -5'
21336 5' -54.5 NC_004778.3 + 85458 0.66 0.919766
Target:  5'- cGGCGACGGCauggaCGCGGGCGUuugcggcggcgacGGCAUGGa -3'
miRNA:   3'- -UUGUUGCUG-----GCGCUCGCG-------------UUGUGCUa -5'
21336 5' -54.5 NC_004778.3 + 75901 0.66 0.920348
Target:  5'- -cCAGCG-CCGagGAGCGCGACauuuuGCGAa -3'
miRNA:   3'- uuGUUGCuGGCg-CUCGCGUUG-----UGCUa -5'
21336 5' -54.5 NC_004778.3 + 75792 0.67 0.858071
Target:  5'- cGCAGCGugCaaguuggacgcGCGAGUGCGGCucaACGAUu -3'
miRNA:   3'- uUGUUGCugG-----------CGCUCGCGUUG---UGCUA- -5'
21336 5' -54.5 NC_004778.3 + 74978 0.67 0.849983
Target:  5'- -cCAcCGACUaCGGGCGCAAgGCGGUg -3'
miRNA:   3'- uuGUuGCUGGcGCUCGCGUUgUGCUA- -5'
21336 5' -54.5 NC_004778.3 + 73459 0.66 0.901794
Target:  5'- cGCGGCGccACUGUccGAGCGCGACAUGc- -3'
miRNA:   3'- uUGUUGC--UGGCG--CUCGCGUUGUGCua -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.