miRNA display CGI


Results 1 - 20 of 38 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
13097 3' -61.9 NC_003401.1 + 22302 0.66 0.654145
Target:  5'- -aACaCCCUCGacguagACGCAGCUGGgCGa -3'
miRNA:   3'- ccUGcGGGAGCg-----UGCGUCGACCgGCc -5'
13097 3' -61.9 NC_003401.1 + 132508 0.66 0.654145
Target:  5'- gGGGCggcggccgcggGCCCggGCcgGCGgGGCggagGGCCGGg -3'
miRNA:   3'- -CCUG-----------CGGGagCG--UGCgUCGa---CCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 17500 0.66 0.654145
Target:  5'- cGGACGCgg-CGCGCGUGGCcc-CCGGg -3'
miRNA:   3'- -CCUGCGggaGCGUGCGUCGaccGGCC- -5'
13097 3' -61.9 NC_003401.1 + 9358 0.66 0.653163
Target:  5'- cGAC-CCCUaGCGC-CGGCgcccuacUGGCCGGg -3'
miRNA:   3'- cCUGcGGGAgCGUGcGUCG-------ACCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 132721 0.66 0.648252
Target:  5'- cGGcCGCCCggcaucgggagccgCGCGcCGCGGCUuguggggccccgGGcCCGGg -3'
miRNA:   3'- -CCuGCGGGa-------------GCGU-GCGUCGA------------CC-GGCC- -5'
13097 3' -61.9 NC_003401.1 + 12929 0.66 0.64432
Target:  5'- cGACGCUucUUCGaACGCGGUUGGCgGu -3'
miRNA:   3'- cCUGCGG--GAGCgUGCGUCGACCGgCc -5'
13097 3' -61.9 NC_003401.1 + 132642 0.66 0.64432
Target:  5'- aGGugGUCUcCGCGcCGCcgggaGGggGGCCGGg -3'
miRNA:   3'- -CCugCGGGaGCGU-GCG-----UCgaCCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 14915 0.66 0.64432
Target:  5'- aGGACgGCCCUgGaguuugACuGCAGCUGGgaGGa -3'
miRNA:   3'- -CCUG-CGGGAgCg-----UG-CGUCGACCggCC- -5'
13097 3' -61.9 NC_003401.1 + 104880 0.66 0.641371
Target:  5'- gGGGCGCgCUgccgCGCACGUgaaggugauuggucAGuCUGGCCa- -3'
miRNA:   3'- -CCUGCG-GGa---GCGUGCG--------------UC-GACCGGcc -5'
13097 3' -61.9 NC_003401.1 + 83405 0.66 0.639404
Target:  5'- uGGACaagguuuggcauuGCCg-UGCACGCGGCgaggauauggagcGGCCGGu -3'
miRNA:   3'- -CCUG-------------CGGgaGCGUGCGUCGa------------CCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 75644 0.66 0.633503
Target:  5'- cGAC-CCC-CGCAacgguuaacccucCGCAGCUGuGUCGGc -3'
miRNA:   3'- cCUGcGGGaGCGU-------------GCGUCGAC-CGGCC- -5'
13097 3' -61.9 NC_003401.1 + 116644 0.66 0.62465
Target:  5'- aGGGCGgUUggaCGCugGCGcGUUGGCCGu -3'
miRNA:   3'- -CCUGCgGGa--GCGugCGU-CGACCGGCc -5'
13097 3' -61.9 NC_003401.1 + 72459 0.66 0.62465
Target:  5'- aGGGCGUCUUccaucugccCGCGCGUcacGGCcuUGGCCGu -3'
miRNA:   3'- -CCUGCGGGA---------GCGUGCG---UCG--ACCGGCc -5'
13097 3' -61.9 NC_003401.1 + 20540 0.66 0.62465
Target:  5'- --uCGCUUacaaUCGCGgGCGGC-GGCCGGu -3'
miRNA:   3'- ccuGCGGG----AGCGUgCGUCGaCCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 132448 0.66 0.61482
Target:  5'- cGGCGCCCg-GCGCGCg---GGcCCGGg -3'
miRNA:   3'- cCUGCGGGagCGUGCGucgaCC-GGCC- -5'
13097 3' -61.9 NC_003401.1 + 132857 0.67 0.595202
Target:  5'- cGGgGCCCUCGguCGC-GCcccGcGCCGGg -3'
miRNA:   3'- cCUgCGGGAGCguGCGuCGa--C-CGGCC- -5'
13097 3' -61.9 NC_003401.1 + 20759 0.67 0.575684
Target:  5'- aGGGCgcgGCCCcgCGUugGgGGUUggcGGCCGGu -3'
miRNA:   3'- -CCUG---CGGGa-GCGugCgUCGA---CCGGCC- -5'
13097 3' -61.9 NC_003401.1 + 119353 0.67 0.565977
Target:  5'- cGGugGCUCUCGCAaauggaaaagGCGGCccUGGUCa- -3'
miRNA:   3'- -CCugCGGGAGCGUg---------CGUCG--ACCGGcc -5'
13097 3' -61.9 NC_003401.1 + 40343 0.67 0.564041
Target:  5'- aGGACuCCCUCGCcaaaacaccgauCGCGGC-GGCUGu -3'
miRNA:   3'- -CCUGcGGGAGCGu-----------GCGUCGaCCGGCc -5'
13097 3' -61.9 NC_003401.1 + 126057 0.67 0.556314
Target:  5'- uGGCGCaCCUCGUcgACGU-GCUggGGCUGGa -3'
miRNA:   3'- cCUGCG-GGAGCG--UGCGuCGA--CCGGCC- -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.