miRNA display CGI


Results 1 - 20 of 39 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
16380 5' -54.7 NC_004084.1 + 32208 0.65 0.795197
Target:  5'- aGAGG-AGCGcCUCGAGaugcuccUCGA-CGACGc -3'
miRNA:   3'- aCUCCgUCGU-GAGCUC-------AGCUaGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 43452 0.66 0.786426
Target:  5'- cGAGGUGGUGCUCcugGAGcgugauguUCGAcUCGGCGu -3'
miRNA:   3'- aCUCCGUCGUGAG---CUC--------AGCU-AGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 22167 0.66 0.786426
Target:  5'- --cGGC-GCACUCGAGgacGUCGACc -3'
miRNA:   3'- acuCCGuCGUGAGCUCagcUAGCUGc -5'
16380 5' -54.7 NC_004084.1 + 45366 0.66 0.775532
Target:  5'- -aAGGaGGCGCUCGAGUacuucaaaaagaaCGAaCGGCGg -3'
miRNA:   3'- acUCCgUCGUGAGCUCA-------------GCUaGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 4790 0.66 0.775532
Target:  5'- --uGGUAGCugUCGAugaucucGUCGGcucgguccUCGACGa -3'
miRNA:   3'- acuCCGUCGugAGCU-------CAGCU--------AGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 51155 0.66 0.766485
Target:  5'- cGAGGaGGCGaUCGAGaCGGUCGcCGa -3'
miRNA:   3'- aCUCCgUCGUgAGCUCaGCUAGCuGC- -5'
16380 5' -54.7 NC_004084.1 + 50247 0.66 0.766485
Target:  5'- cUGAGGCGuCGCUgGAGcgggcUGGUCGGCa -3'
miRNA:   3'- -ACUCCGUcGUGAgCUCa----GCUAGCUGc -5'
16380 5' -54.7 NC_004084.1 + 22358 0.66 0.756304
Target:  5'- cGAGGUgcguuGC-CUCGAcUgGAUCGACGu -3'
miRNA:   3'- aCUCCGu----CGuGAGCUcAgCUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 36594 0.66 0.745997
Target:  5'- -cAGGCcGCggACUCGuuUCGAUCGGCc -3'
miRNA:   3'- acUCCGuCG--UGAGCucAGCUAGCUGc -5'
16380 5' -54.7 NC_004084.1 + 53207 0.66 0.745997
Target:  5'- gGAaGCAGCACgUCGAGUCGcaccGUCGugucaucuacgaGCGg -3'
miRNA:   3'- aCUcCGUCGUG-AGCUCAGC----UAGC------------UGC- -5'
16380 5' -54.7 NC_004084.1 + 42346 0.67 0.735576
Target:  5'- cGAGGCGGCggaACUCGAG-CGccaGGCc -3'
miRNA:   3'- aCUCCGUCG---UGAGCUCaGCuagCUGc -5'
16380 5' -54.7 NC_004084.1 + 49887 0.67 0.735576
Target:  5'- cGAGGCuGUcCUCGAGgcCGAUCuGGCc -3'
miRNA:   3'- aCUCCGuCGuGAGCUCa-GCUAG-CUGc -5'
16380 5' -54.7 NC_004084.1 + 31308 0.67 0.734528
Target:  5'- uUGGGGUAGCccuucuggauccgGCUCGGGauccggagcaguUCGucGUCGACGu -3'
miRNA:   3'- -ACUCCGUCG-------------UGAGCUC------------AGC--UAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 12308 0.67 0.725051
Target:  5'- gGuAGGCGGCGagaUCGucGUCGGaugcgUCGACGa -3'
miRNA:   3'- aC-UCCGUCGUg--AGCu-CAGCU-----AGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 4924 0.67 0.714436
Target:  5'- gGAGGUgccggauGUGCUCGcGaCGAUCGGCGa -3'
miRNA:   3'- aCUCCGu------CGUGAGCuCaGCUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 39738 0.67 0.714436
Target:  5'- cGGGGUuggAGCGCgCGAGUUccUCGGCGu -3'
miRNA:   3'- aCUCCG---UCGUGaGCUCAGcuAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 17303 0.67 0.703739
Target:  5'- gUGGcGGCgAGCACaUCGAGauuaCGAUCGAgGa -3'
miRNA:   3'- -ACU-CCG-UCGUG-AGCUCa---GCUAGCUgC- -5'
16380 5' -54.7 NC_004084.1 + 48261 0.67 0.703739
Target:  5'- uUGAGGUcGC-CUggUGAGUCGcgGUCGGCGu -3'
miRNA:   3'- -ACUCCGuCGuGA--GCUCAGC--UAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 47934 0.68 0.671279
Target:  5'- cGGGGUGGCugUCGA-UCGA--GACGg -3'
miRNA:   3'- aCUCCGUCGugAGCUcAGCUagCUGC- -5'
16380 5' -54.7 NC_004084.1 + 863 0.68 0.660371
Target:  5'- cGAGGUcGCGCgucgccucgaCGAGcCGAUCGGCc -3'
miRNA:   3'- aCUCCGuCGUGa---------GCUCaGCUAGCUGc -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.