miRNA display CGI


Results 1 - 20 of 38 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
27579 5' -60.9 NC_005882.1 + 6450 0.81 0.026474
Target:  5'- gACGGCACucauCGUCGCGAGCCCCcgaaucaguuaGCGGCGc -3'
miRNA:   3'- -UGUCGUG----GCAGUGCUCGGGG-----------CGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 3273 0.66 0.334796
Target:  5'- cCGGcCGCCGUCGCGcggcgagaucucuucGGCCagcaCGCGGUa -3'
miRNA:   3'- uGUC-GUGGCAGUGC---------------UCGGg---GCGUCGc -5'
27579 5' -60.9 NC_005882.1 + 11629 0.66 0.323633
Target:  5'- cGCAGCAacugcCCGUCGCccucuacaaacuGAGUCUCGuCAGCc -3'
miRNA:   3'- -UGUCGU-----GGCAGUG------------CUCGGGGC-GUCGc -5'
27579 5' -60.9 NC_005882.1 + 11928 0.66 0.308173
Target:  5'- uCGGCGCCGcCGCGcccguGGCCgCGCAaGUGc -3'
miRNA:   3'- uGUCGUGGCaGUGC-----UCGGgGCGU-CGC- -5'
27579 5' -60.9 NC_005882.1 + 23425 0.66 0.293283
Target:  5'- aGCAGCucgucGgCGUCACGGGCgUCG-AGCGg -3'
miRNA:   3'- -UGUCG-----UgGCAGUGCUCGgGGCgUCGC- -5'
27579 5' -60.9 NC_005882.1 + 14531 0.67 0.27896
Target:  5'- gACuGCGCCGaCugGgccaaguucuacAGCCUCGCGGCc -3'
miRNA:   3'- -UGuCGUGGCaGugC------------UCGGGGCGUCGc -5'
27579 5' -60.9 NC_005882.1 + 9051 0.67 0.251995
Target:  5'- -aAGCuCCG-CGCGGGCUUCaGCGGCGg -3'
miRNA:   3'- ugUCGuGGCaGUGCUCGGGG-CGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 15670 0.68 0.215613
Target:  5'- gACGGCAagCGcCACGGcgacGCCgCCGUAGCGg -3'
miRNA:   3'- -UGUCGUg-GCaGUGCU----CGG-GGCGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 22667 0.69 0.204525
Target:  5'- cGCAGCucGCCGgcuUCACGA-UCCCGCAaGCGc -3'
miRNA:   3'- -UGUCG--UGGC---AGUGCUcGGGGCGU-CGC- -5'
27579 5' -60.9 NC_005882.1 + 16614 0.69 0.199169
Target:  5'- gUAGCGCCGacgUCuACGAGCgCCUGCuGCa -3'
miRNA:   3'- uGUCGUGGC---AG-UGCUCG-GGGCGuCGc -5'
27579 5' -60.9 NC_005882.1 + 21978 0.7 0.16954
Target:  5'- cGCGGCgagugaaguuuGCCGUCGCGAucgugcugcGCCagcucaacggCCGCGGCGg -3'
miRNA:   3'- -UGUCG-----------UGGCAGUGCU---------CGG----------GGCGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 3475 0.7 0.16954
Target:  5'- gGCGGUgacgACCGgCACGcccAGgCCCGCGGCGa -3'
miRNA:   3'- -UGUCG----UGGCaGUGC---UCgGGGCGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 14665 0.71 0.136193
Target:  5'- cACGGCACUGUCGuCGcGCCCguccaaccugCGCGGCa -3'
miRNA:   3'- -UGUCGUGGCAGU-GCuCGGG----------GCGUCGc -5'
27579 5' -60.9 NC_005882.1 + 22404 0.73 0.094641
Target:  5'- cGCAGCGCCGUCGaccaAGCCCgCGCgccccAGCGu -3'
miRNA:   3'- -UGUCGUGGCAGUgc--UCGGG-GCG-----UCGC- -5'
27579 5' -60.9 NC_005882.1 + 18983 0.71 0.132476
Target:  5'- uGCAGCAgCCGUCgcgGCGAGgUCCGUuucGGCGa -3'
miRNA:   3'- -UGUCGU-GGCAG---UGCUCgGGGCG---UCGC- -5'
27579 5' -60.9 NC_005882.1 + 31540 0.72 0.112074
Target:  5'- gACAGCGCCGUCGCucGUCUCGaCAcGCGu -3'
miRNA:   3'- -UGUCGUGGCAGUGcuCGGGGC-GU-CGC- -5'
27579 5' -60.9 NC_005882.1 + 27152 0.73 0.105952
Target:  5'- aGCAGCAucCCGcCcuggGCGAGCagCCGCAGCGg -3'
miRNA:   3'- -UGUCGU--GGCaG----UGCUCGg-GGCGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 25721 0.73 0.103011
Target:  5'- aACAGCGCCGaUUACGGGCgcggCCGUGGCa -3'
miRNA:   3'- -UGUCGUGGC-AGUGCUCGg---GGCGUCGc -5'
27579 5' -60.9 NC_005882.1 + 12976 0.76 0.065289
Target:  5'- gGCAGCACUgGUCGCGGGCacaccaucggcgCCgGCGGCGg -3'
miRNA:   3'- -UGUCGUGG-CAGUGCUCG------------GGgCGUCGC- -5'
27579 5' -60.9 NC_005882.1 + 26639 0.66 0.339665
Target:  5'- aGCGGCcccacgcgACgGUCGCcAGCUCCGC-GCGg -3'
miRNA:   3'- -UGUCG--------UGgCAGUGcUCGGGGCGuCGC- -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.