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 + 5164 1.09 0.001251
Target:  5'- cUGAGGCAGCACUCGAGUCGAUCGACGa -3'
miRNA:   3'- -ACUCCGUCGUGAGCUCAGCUAGCUGC- -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 + 42346 0.67 0.735576
Target:  5'- cGAGGCGGCggaACUCGAG-CGccaGGCc -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 + 50247 0.66 0.766485
Target:  5'- cUGAGGCGuCGCUgGAGcgggcUGGUCGGCa -3'
miRNA:   3'- -ACUCCGUcGUGAgCUCa----GCUAGCUGc -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 + 45366 0.66 0.775532
Target:  5'- -aAGGaGGCGCUCGAGUacuucaaaaagaaCGAaCGGCGg -3'
miRNA:   3'- acUCCgUCGUGAGCUCA-------------GCUaGCUGC- -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 + 32208 0.65 0.795197
Target:  5'- aGAGG-AGCGcCUCGAGaugcuccUCGA-CGACGc -3'
miRNA:   3'- aCUCCgUCGU-GAGCUC-------AGCUaGCUGC- -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 + 20406 0.68 0.653814
Target:  5'- gUGAGGCgcuugauaaacagcuGGCGCUCGcuggcuucAGUCGucaaccgucucaGUCGGCGa -3'
miRNA:   3'- -ACUCCG---------------UCGUGAGC--------UCAGC------------UAGCUGC- -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 + 5201 0.75 0.286846
Target:  5'- cGAGGCGGCaggcagcacGCUCGAGaCGAUC-ACGg -3'
miRNA:   3'- aCUCCGUCG---------UGAGCUCaGCUAGcUGC- -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 + 39827 0.72 0.410471
Target:  5'- aGAGuCaugauGGCGCUCGAGUCcAUCGGCGg -3'
miRNA:   3'- aCUCcG-----UCGUGAGCUCAGcUAGCUGC- -5'
16380 5' -54.7 NC_004084.1 + 41345 0.71 0.468372
Target:  5'- cUGAGGCAGCGauaucCGAaaucGUCG-UCGACGa -3'
miRNA:   3'- -ACUCCGUCGUga---GCU----CAGCuAGCUGC- -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 + 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 + 17188 0.68 0.627534
Target:  5'- gGAGGCacauugucgucAGCcCUCGAGUCGAcgcUCGGu- -3'
miRNA:   3'- aCUCCG-----------UCGuGAGCUCAGCU---AGCUgc -5'
16380 5' -54.7 NC_004084.1 + 57687 0.68 0.627534
Target:  5'- cGAGGCGGCGuauaUCGAGggaCGAgaCGAUGa -3'
miRNA:   3'- aCUCCGUCGUg---AGCUCa--GCUa-GCUGC- -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.