miRNA display CGI


Results 1 - 20 of 36 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
17001 3' -55.8 NC_004333.2 + 15497 0.73 0.292719
Target:  5'- aGGGCUGCucGCGGCGgucacCGgcGGCGcGUCAa -3'
miRNA:   3'- -CCCGAUGu-CGCCGU-----GCaaCUGC-CAGU- -5'
17001 3' -55.8 NC_004333.2 + 3876 0.66 0.650898
Target:  5'- cGGGC-GCAGCGuaACGggauUGGUCAu -3'
miRNA:   3'- -CCCGaUGUCGCcgUGCaacuGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 11915 0.67 0.594612
Target:  5'- cGGCaugcGCAGCGGCGCGcgcgccaUUacgcgcgcuccaGGCGGUCGa -3'
miRNA:   3'- cCCGa---UGUCGCCGUGC-------AA------------CUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 23113 0.67 0.573789
Target:  5'- cGGCUgaACGGCGGCACugauGUUGcgcGCGGa-- -3'
miRNA:   3'- cCCGA--UGUCGCCGUG----CAAC---UGCCagu -5'
17001 3' -55.8 NC_004333.2 + 18550 0.68 0.530584
Target:  5'- cGGGUgcgGCAGcCGGCGCGgcGGCGa--- -3'
miRNA:   3'- -CCCGa--UGUC-GCCGUGCaaCUGCcagu -5'
17001 3' -55.8 NC_004333.2 + 25113 0.69 0.488621
Target:  5'- cGGGC-ACGGCGaGCACGgcGGCGcG-CAc -3'
miRNA:   3'- -CCCGaUGUCGC-CGUGCaaCUGC-CaGU- -5'
17001 3' -55.8 NC_004333.2 + 33450 0.66 0.650898
Target:  5'- cGGCagcauugGCAGCGGCGCGccgGGCGaUCc -3'
miRNA:   3'- cCCGa------UGUCGCCGUGCaa-CUGCcAGu -5'
17001 3' -55.8 NC_004333.2 + 15282 0.66 0.650898
Target:  5'- -uGCUGCGGCGGC------GCGGUCAg -3'
miRNA:   3'- ccCGAUGUCGCCGugcaacUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 22176 0.67 0.573789
Target:  5'- -cGCcgGCGGCGGC-CGgcGGCGGUUc -3'
miRNA:   3'- ccCGa-UGUCGCCGuGCaaCUGCCAGu -5'
17001 3' -55.8 NC_004333.2 + 4211 0.69 0.478371
Target:  5'- uGGauuUGCAGCuGCGCGUUGACGcUCGa -3'
miRNA:   3'- cCCg--AUGUCGcCGUGCAACUGCcAGU- -5'
17001 3' -55.8 NC_004333.2 + 44384 0.72 0.331322
Target:  5'- -cGCUGCucGGCGGCGCGUgcGCGGUaCAa -3'
miRNA:   3'- ccCGAUG--UCGCCGUGCAacUGCCA-GU- -5'
17001 3' -55.8 NC_004333.2 + 21425 0.66 0.661924
Target:  5'- uGGGCaaaUugGGCGGCGCaGgacgcgGACGGa-- -3'
miRNA:   3'- -CCCG---AugUCGCCGUG-Caa----CUGCCagu -5'
17001 3' -55.8 NC_004333.2 + 13903 0.7 0.438485
Target:  5'- cGGGCUgcGCGGCGGCugcCG-UGGCGaUCGu -3'
miRNA:   3'- -CCCGA--UGUCGCCGu--GCaACUGCcAGU- -5'
17001 3' -55.8 NC_004333.2 + 40471 0.66 0.628805
Target:  5'- gGGGCUGCAGCGGgcUACGguagugUGACc---- -3'
miRNA:   3'- -CCCGAUGUCGCC--GUGCa-----ACUGccagu -5'
17001 3' -55.8 NC_004333.2 + 13364 0.66 0.672921
Target:  5'- cGGGCgcgGCacgAGCGGCGUGUccaUGAucUGGUCGu -3'
miRNA:   3'- -CCCGa--UG---UCGCCGUGCA---ACU--GCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 25836 0.74 0.244708
Target:  5'- aGGGU--CAGgGGCGCGUcaGGCGGUCGa -3'
miRNA:   3'- -CCCGauGUCgCCGUGCAa-CUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 41579 0.69 0.458196
Target:  5'- cGGcGCUG-GGCGGCGCGccgUGGCGG-CGa -3'
miRNA:   3'- -CC-CGAUgUCGCCGUGCa--ACUGCCaGU- -5'
17001 3' -55.8 NC_004333.2 + 6585 0.69 0.482458
Target:  5'- uGGGCcgcagugcaaccagGCAGUcaacgaauGGCGCGUUGAagcCGGUCGu -3'
miRNA:   3'- -CCCGa-------------UGUCG--------CCGUGCAACU---GCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 29309 0.69 0.488621
Target:  5'- uGGGCgcccCGGCGGCaauGCGUUGcgcACGG-CAa -3'
miRNA:   3'- -CCCGau--GUCGCCG---UGCAAC---UGCCaGU- -5'
17001 3' -55.8 NC_004333.2 + 24545 0.67 0.562896
Target:  5'- aGGCgaggACuucaaCGGCGCGUUGAaccaGGUCGc -3'
miRNA:   3'- cCCGa---UGuc---GCCGUGCAACUg---CCAGU- -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.