miRNA display CGI


Results 1 - 20 of 30 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
16566 5' -49.7 NC_004117.1 + 156051 0.66 0.996678
Target:  5'- cGCGCuuccaaccguACAUGUgcACCGACGccauuuuaGGCAAAGu -3'
miRNA:   3'- aCGCGu---------UGUGCA--UGGCUGU--------UCGUUUU- -5'
16566 5' -49.7 NC_004117.1 + 54242 0.66 0.995394
Target:  5'- uUGCGCAGCcucgUGUACCcuuACGAGUAGGu -3'
miRNA:   3'- -ACGCGUUGu---GCAUGGc--UGUUCGUUUu -5'
16566 5' -49.7 NC_004117.1 + 43218 0.66 0.995394
Target:  5'- cGUGCGGCugGcauCCGACAGGa---- -3'
miRNA:   3'- aCGCGUUGugCau-GGCUGUUCguuuu -5'
16566 5' -49.7 NC_004117.1 + 73240 0.66 0.994614
Target:  5'- aUGCGCGACAaguUGUACgaggCGACAcGCAu-- -3'
miRNA:   3'- -ACGCGUUGU---GCAUG----GCUGUuCGUuuu -5'
16566 5' -49.7 NC_004117.1 + 157555 0.66 0.994531
Target:  5'- gGUGCGuCACGUggaucaaGgUGGCAAGCGAAAa -3'
miRNA:   3'- aCGCGUuGUGCA-------UgGCUGUUCGUUUU- -5'
16566 5' -49.7 NC_004117.1 + 131409 0.67 0.993731
Target:  5'- uUGUGCAGCACacauCUGuCGAGCGGAu -3'
miRNA:   3'- -ACGCGUUGUGcau-GGCuGUUCGUUUu -5'
16566 5' -49.7 NC_004117.1 + 133481 0.67 0.993731
Target:  5'- uUGCGC-GCACGUGCCGuCcucGGCc--- -3'
miRNA:   3'- -ACGCGuUGUGCAUGGCuGu--UCGuuuu -5'
16566 5' -49.7 NC_004117.1 + 133513 0.67 0.991618
Target:  5'- cGCGacaGAUACGauaugGgCGACAGGCAGAu -3'
miRNA:   3'- aCGCg--UUGUGCa----UgGCUGUUCGUUUu -5'
16566 5' -49.7 NC_004117.1 + 49568 0.67 0.991618
Target:  5'- gUGCGCGACAUgacgGUgagcuugagacgACCGACAGGUu--- -3'
miRNA:   3'- -ACGCGUUGUG----CA------------UGGCUGUUCGuuuu -5'
16566 5' -49.7 NC_004117.1 + 135661 0.67 0.988978
Target:  5'- gGCGUAcgccccugGCAucuauUGUGCCGACuuuAGCAAGAu -3'
miRNA:   3'- aCGCGU--------UGU-----GCAUGGCUGu--UCGUUUU- -5'
16566 5' -49.7 NC_004117.1 + 55231 0.68 0.987435
Target:  5'- cGCGUucacucuACACGgacCCGACGAGCu--- -3'
miRNA:   3'- aCGCGu------UGUGCau-GGCUGUUCGuuuu -5'
16566 5' -49.7 NC_004117.1 + 29734 0.68 0.983856
Target:  5'- uUGUuuuCAACAcCGUaACCGACGAGCAAc- -3'
miRNA:   3'- -ACGc--GUUGU-GCA-UGGCUGUUCGUUuu -5'
16566 5' -49.7 NC_004117.1 + 141225 0.68 0.981799
Target:  5'- cGCGCGACACGUuUCG-CA-GCAGu- -3'
miRNA:   3'- aCGCGUUGUGCAuGGCuGUuCGUUuu -5'
16566 5' -49.7 NC_004117.1 + 8294 0.68 0.979552
Target:  5'- cGCGCGuguacgauACACGUGCCGAUuacguGCu--- -3'
miRNA:   3'- aCGCGU--------UGUGCAUGGCUGuu---CGuuuu -5'
16566 5' -49.7 NC_004117.1 + 14773 0.68 0.979552
Target:  5'- -uCGCuuguuACACaGgggACCGACAAGCAAAGu -3'
miRNA:   3'- acGCGu----UGUG-Ca--UGGCUGUUCGUUUU- -5'
16566 5' -49.7 NC_004117.1 + 34028 0.68 0.979552
Target:  5'- gGCGCAuuACAUuUGCaCGAUAAGCGAc- -3'
miRNA:   3'- aCGCGU--UGUGcAUG-GCUGUUCGUUuu -5'
16566 5' -49.7 NC_004117.1 + 71463 0.69 0.977106
Target:  5'- aUGCGCAugGCGuUGCCGGCc-GUAc-- -3'
miRNA:   3'- -ACGCGUugUGC-AUGGCUGuuCGUuuu -5'
16566 5' -49.7 NC_004117.1 + 42150 0.69 0.97445
Target:  5'- uUGCGCGACAC--AUCGACAuuggugccuAGCAAu- -3'
miRNA:   3'- -ACGCGUUGUGcaUGGCUGU---------UCGUUuu -5'
16566 5' -49.7 NC_004117.1 + 39485 0.7 0.957761
Target:  5'- aGUGCGA-ACGUGCCGACAcuaaugcucGCAAAAu -3'
miRNA:   3'- aCGCGUUgUGCAUGGCUGUu--------CGUUUU- -5'
16566 5' -49.7 NC_004117.1 + 96896 0.7 0.957761
Target:  5'- cGCGuCAaagcACACGcUACCGAucCGAGCAAAu -3'
miRNA:   3'- aCGC-GU----UGUGC-AUGGCU--GUUCGUUUu -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.