miRNA display CGI


Results 1 - 19 of 19 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
18728 5' -59.3 NC_004682.1 + 45996 0.66 0.477483
Target:  5'- cGGACuucaccuGGUCGacGUUGCCGAuCUCCAUg- -3'
miRNA:   3'- -UCUGu------CCAGC--CGACGGCU-GAGGUGgu -5'
18728 5' -59.3 NC_004682.1 + 28677 0.66 0.477483
Target:  5'- cAGAagaAGaUCGGCgUGCCGAUgCCGCCc -3'
miRNA:   3'- -UCUg--UCcAGCCG-ACGGCUGaGGUGGu -5'
18728 5' -59.3 NC_004682.1 + 21791 0.66 0.476485
Target:  5'- cGACGcuccgugcGGUCGGCaugccgcUGCCGAUcCCGCUg -3'
miRNA:   3'- uCUGU--------CCAGCCG-------ACGGCUGaGGUGGu -5'
18728 5' -59.3 NC_004682.1 + 29103 0.66 0.467555
Target:  5'- cGGCgGGGUCGGCU-UCGAgCUUCGCCc -3'
miRNA:   3'- uCUG-UCCAGCCGAcGGCU-GAGGUGGu -5'
18728 5' -59.3 NC_004682.1 + 24513 0.66 0.463614
Target:  5'- cAGcCAGGUCGGCgcggacuaccgggGCUggGGCUUCAUCAg -3'
miRNA:   3'- -UCuGUCCAGCCGa------------CGG--CUGAGGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 9384 0.66 0.448027
Target:  5'- -aACAGGacUCGGCUGUCGGacCUCUACg- -3'
miRNA:   3'- ucUGUCC--AGCCGACGGCU--GAGGUGgu -5'
18728 5' -59.3 NC_004682.1 + 11491 0.66 0.448027
Target:  5'- gAGGCcGGUgcuaCGGCUGCCGcCg-CGCCAa -3'
miRNA:   3'- -UCUGuCCA----GCCGACGGCuGagGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 39532 0.66 0.445137
Target:  5'- cGGACAGGUCGGUuucgaguuccgagaUGCgCGAgUCCuuCu -3'
miRNA:   3'- -UCUGUCCAGCCG--------------ACG-GCUgAGGugGu -5'
18728 5' -59.3 NC_004682.1 + 5193 0.66 0.438433
Target:  5'- uGACGGGcUGaaGCagGCCGACUgCACCAc -3'
miRNA:   3'- uCUGUCCaGC--CGa-CGGCUGAgGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 47590 0.67 0.428959
Target:  5'- --cCGGGUgGGUUGCCuGCgCCGCCGa -3'
miRNA:   3'- ucuGUCCAgCCGACGGcUGaGGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 36225 0.67 0.428959
Target:  5'- -aGCAGGagUCGGCgcaGCCGuGC-CCACCGg -3'
miRNA:   3'- ucUGUCC--AGCCGa--CGGC-UGaGGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 18866 0.68 0.366186
Target:  5'- aAGACGGcUCGuaUGCCcuacGACUUCGCCAg -3'
miRNA:   3'- -UCUGUCcAGCcgACGG----CUGAGGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 42289 0.69 0.325385
Target:  5'- -cGCAGcaCGGCUGCCGACUCaugcggACCu -3'
miRNA:   3'- ucUGUCcaGCCGACGGCUGAGg-----UGGu -5'
18728 5' -59.3 NC_004682.1 + 23754 0.69 0.295247
Target:  5'- uGGCuGGGUUGGCcgucacGCCGAucaaCUCCACCGu -3'
miRNA:   3'- uCUG-UCCAGCCGa-----CGGCU----GAGGUGGU- -5'
18728 5' -59.3 NC_004682.1 + 14611 0.71 0.235475
Target:  5'- cGGugGGcaCGGCUgcGCCGACUCCugCu -3'
miRNA:   3'- -UCugUCcaGCCGA--CGGCUGAGGugGu -5'
18728 5' -59.3 NC_004682.1 + 7703 0.71 0.217933
Target:  5'- uGGACcGGagcguggCGGCUGCCGAC-CgACCAg -3'
miRNA:   3'- -UCUGuCCa------GCCGACGGCUGaGgUGGU- -5'
18728 5' -59.3 NC_004682.1 + 49267 0.74 0.150255
Target:  5'- gGGAUGGcGUCGGCgucgGUCGACUCgACCu -3'
miRNA:   3'- -UCUGUC-CAGCCGa---CGGCUGAGgUGGu -5'
18728 5' -59.3 NC_004682.1 + 31926 0.74 0.150255
Target:  5'- cAGACGcGGUUGGCUcucucCCGACUCgACCAg -3'
miRNA:   3'- -UCUGU-CCAGCCGAc----GGCUGAGgUGGU- -5'
18728 5' -59.3 NC_004682.1 + 34176 1.08 0.000391
Target:  5'- gAGACAGGUCGGCUGCCGACUCCACCAg -3'
miRNA:   3'- -UCUGUCCAGCCGACGGCUGAGGUGGU- -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.