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 + 863 0.68 0.660371
Target:  5'- cGAGGUcGCGCgucgccucgaCGAGcCGAUCGGCc -3'
miRNA:   3'- aCUCCGuCGUGa---------GCUCaGCUAGCUGc -5'
16380 5' -54.7 NC_004084.1 + 4289 0.69 0.605646
Target:  5'- cGAccGuCAGCgGCUCGAGUCGGaucUCGACGu -3'
miRNA:   3'- aCU--CcGUCG-UGAGCUCAGCU---AGCUGC- -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 + 4924 0.67 0.714436
Target:  5'- gGAGGUgccggauGUGCUCGcGaCGAUCGGCGa -3'
miRNA:   3'- aCUCCGu------CGUGAGCuCaGCUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 5164 1.09 0.001251
Target:  5'- cUGAGGCAGCACUCGAGUCGAUCGACGa -3'
miRNA:   3'- -ACUCCGUCGUGAGCUCAGCUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 5201 0.75 0.286846
Target:  5'- cGAGGCGGCaggcagcacGCUCGAGaCGAUC-ACGg -3'
miRNA:   3'- aCUCCGUCG---------UGAGCUCaGCUAGcUGC- -5'
16380 5' -54.7 NC_004084.1 + 8392 0.73 0.392181
Target:  5'- cGAGcGCGGUACuUCGAGUCGAggcccgCGAUc -3'
miRNA:   3'- aCUC-CGUCGUG-AGCUCAGCUa-----GCUGc -5'
16380 5' -54.7 NC_004084.1 + 8767 0.68 0.649438
Target:  5'- cGAGGUcuccucuucgaGGUGCUCGAGUgGGUCGcCc -3'
miRNA:   3'- aCUCCG-----------UCGUGAGCUCAgCUAGCuGc -5'
16380 5' -54.7 NC_004084.1 + 11649 0.7 0.50921
Target:  5'- ----aCAGCACgUCGAcGUCGGUCGGCGa -3'
miRNA:   3'- acuccGUCGUG-AGCU-CAGCUAGCUGC- -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 + 17188 0.68 0.627534
Target:  5'- gGAGGCacauugucgucAGCcCUCGAGUCGAcgcUCGGu- -3'
miRNA:   3'- aCUCCG-----------UCGuGAGCUCAGCU---AGCUgc -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 + 20012 0.68 0.638489
Target:  5'- cGGGGaauccgauCGGCGCUCGAGgacgaCGAUCG-CGu -3'
miRNA:   3'- aCUCC--------GUCGUGAGCUCa----GCUAGCuGC- -5'
16380 5' -54.7 NC_004084.1 + 20406 0.68 0.653814
Target:  5'- gUGAGGCgcuugauaaacagcuGGCGCUCGcuggcuucAGUCGucaaccgucucaGUCGGCGa -3'
miRNA:   3'- -ACUCCG---------------UCGUGAGC--------UCAGC------------UAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 21324 0.74 0.332485
Target:  5'- cGAGGCAGaC-CUCGAgGUCGGUacUGACGa -3'
miRNA:   3'- aCUCCGUC-GuGAGCU-CAGCUA--GCUGC- -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 + 22358 0.66 0.756304
Target:  5'- cGAGGUgcguuGC-CUCGAcUgGAUCGACGu -3'
miRNA:   3'- aCUCCGu----CGuGAGCUcAgCUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 27468 0.69 0.583848
Target:  5'- aGAcGGuCGGCGucCUCGAGcUCGAcgUCGACGa -3'
miRNA:   3'- aCU-CC-GUCGU--GAGCUC-AGCU--AGCUGC- -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 + 32208 0.65 0.795197
Target:  5'- aGAGG-AGCGcCUCGAGaugcuccUCGA-CGACGc -3'
miRNA:   3'- aCUCCgUCGU-GAGCUC-------AGCUaGCUGC- -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.