miRNA display CGI


Results 1 - 20 of 21 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
9311 3' -54.3 NC_002512.2 + 96504 0.66 0.986136
Target:  5'- -gGUCCgggcgACCGCc-GGAGGGaGCCGCGc -3'
miRNA:   3'- gaCAGG-----UGGUGcaCCUUCCaUGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 132038 0.66 0.986136
Target:  5'- -cGUCgGCCAgGgaccGGAGGGUG-CGCGa -3'
miRNA:   3'- gaCAGgUGGUgCa---CCUUCCAUgGUGC- -5'
9311 3' -54.3 NC_002512.2 + 40517 0.66 0.984449
Target:  5'- aCUaUCCGCUugcgaaccgGCGUaccgGGAuggGGGUGCCACGa -3'
miRNA:   3'- -GAcAGGUGG---------UGCA----CCU---UCCAUGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 215074 0.66 0.982611
Target:  5'- -cGUCUACCGCGUcGGcGGG-ACCGa- -3'
miRNA:   3'- gaCAGGUGGUGCA-CCuUCCaUGGUgc -5'
9311 3' -54.3 NC_002512.2 + 104976 0.66 0.982611
Target:  5'- -gGUCCGCCuCGagguagGGGAGGUaGCC-CGg -3'
miRNA:   3'- gaCAGGUGGuGCa-----CCUUCCA-UGGuGC- -5'
9311 3' -54.3 NC_002512.2 + 212456 0.66 0.980613
Target:  5'- -cGaCCGCCGCGaGGAGGGcauCCGCc -3'
miRNA:   3'- gaCaGGUGGUGCaCCUUCCau-GGUGc -5'
9311 3' -54.3 NC_002512.2 + 155591 0.66 0.980613
Target:  5'- cCUGUCCuccgucgaggACCACG-GGGAcGUGCgGCGc -3'
miRNA:   3'- -GACAGG----------UGGUGCaCCUUcCAUGgUGC- -5'
9311 3' -54.3 NC_002512.2 + 174702 0.66 0.978449
Target:  5'- -gGUUgGCCGCGUGGAugccguAGGUcaugGgCACGg -3'
miRNA:   3'- gaCAGgUGGUGCACCU------UCCA----UgGUGC- -5'
9311 3' -54.3 NC_002512.2 + 104829 0.67 0.973593
Target:  5'- -gGUCCACCcucACGaggcGGAAGGUAUCGu- -3'
miRNA:   3'- gaCAGGUGG---UGCa---CCUUCCAUGGUgc -5'
9311 3' -54.3 NC_002512.2 + 223262 0.68 0.958079
Target:  5'- -cGUCCGCguCGUcGGggGGcgggacGCCGCGc -3'
miRNA:   3'- gaCAGGUGguGCA-CCuuCCa-----UGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 80000 0.68 0.950411
Target:  5'- --uUCCGCCugGcgaGGAGGGaAUCACGg -3'
miRNA:   3'- gacAGGUGGugCa--CCUUCCaUGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 221017 0.69 0.937248
Target:  5'- uCUGU-CACCACGcGGccaccaacGGGGUGCCGCc -3'
miRNA:   3'- -GACAgGUGGUGCaCC--------UUCCAUGGUGc -5'
9311 3' -54.3 NC_002512.2 + 144615 0.69 0.932408
Target:  5'- -gGUCCgcGCCGCGcUGGAcguGGcgGCCACGc -3'
miRNA:   3'- gaCAGG--UGGUGC-ACCUu--CCa-UGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 192180 0.7 0.904174
Target:  5'- gCUGUCCguccugcGCCGCGgcugGGGAGG-ACC-CGg -3'
miRNA:   3'- -GACAGG-------UGGUGCa---CCUUCCaUGGuGC- -5'
9311 3' -54.3 NC_002512.2 + 90723 0.7 0.892158
Target:  5'- -gGUCCACCAUGUGGc-GGaACCAg- -3'
miRNA:   3'- gaCAGGUGGUGCACCuuCCaUGGUgc -5'
9311 3' -54.3 NC_002512.2 + 76224 0.7 0.885515
Target:  5'- gCUGUCCGCCACGagggUGaGGAGcGUGCCc-- -3'
miRNA:   3'- -GACAGGUGGUGC----AC-CUUC-CAUGGugc -5'
9311 3' -54.3 NC_002512.2 + 149153 0.71 0.871592
Target:  5'- ---aCCGCCGCGgGGccGGUGCCGCc -3'
miRNA:   3'- gacaGGUGGUGCaCCuuCCAUGGUGc -5'
9311 3' -54.3 NC_002512.2 + 191342 0.71 0.871592
Target:  5'- -cGUCCGCgACGgGGGuAGGUcGCCGCGc -3'
miRNA:   3'- gaCAGGUGgUGCaCCU-UCCA-UGGUGC- -5'
9311 3' -54.3 NC_002512.2 + 161182 0.71 0.871592
Target:  5'- aUGUCaACCugGUGGGgacGGuGUGCCugGa -3'
miRNA:   3'- gACAGgUGGugCACCU---UC-CAUGGugC- -5'
9311 3' -54.3 NC_002512.2 + 184974 0.73 0.763339
Target:  5'- -cGUCCGCCgcgcggccgucgACGUGGAGcgcugcggcccGGUGCCGCu -3'
miRNA:   3'- gaCAGGUGG------------UGCACCUU-----------CCAUGGUGc -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.