miRNA display CGI


Results 1 - 20 of 29 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
23402 3' -54.1 NC_005259.1 + 51464 0.66 0.847551
Target:  5'- -aGAGCUUGUUGCCcu---CGGCGAc -3'
miRNA:   3'- ugCUCGAGCAACGGcucauGCUGCUc -5'
23402 3' -54.1 NC_005259.1 + 7041 0.66 0.847551
Target:  5'- gGCGGGguuuUUCGUUGCgCGAGauccuguCGACGGGc -3'
miRNA:   3'- -UGCUC----GAGCAACG-GCUCau-----GCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 47067 0.66 0.847551
Target:  5'- gUGAGCgaggCGagcGCCGAG-ACGAUGGGc -3'
miRNA:   3'- uGCUCGa---GCaa-CGGCUCaUGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 14546 0.66 0.838982
Target:  5'- cCGAGUUCGUccggcagGCCGAGcggggacCGGCGAa -3'
miRNA:   3'- uGCUCGAGCAa------CGGCUCau-----GCUGCUc -5'
23402 3' -54.1 NC_005259.1 + 17520 0.66 0.838982
Target:  5'- cCGAGCUCGUggGCacacAGcgACGGCGGGc -3'
miRNA:   3'- uGCUCGAGCAa-CGgc--UCa-UGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 44297 0.66 0.838982
Target:  5'- cGCGAGCggGUUGCCcucuuUGACGAGc -3'
miRNA:   3'- -UGCUCGagCAACGGcucauGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 26501 0.66 0.821221
Target:  5'- cGCGAGCUCGccGCC-----CGGCGAGa -3'
miRNA:   3'- -UGCUCGAGCaaCGGcucauGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 62645 0.67 0.812046
Target:  5'- uGCGuAGCuucUCGUUGUCGAGacCGAgCGAGg -3'
miRNA:   3'- -UGC-UCG---AGCAACGGCUCauGCU-GCUC- -5'
23402 3' -54.1 NC_005259.1 + 56673 0.67 0.812046
Target:  5'- cACGGGCUCGUUGCgCcacccaUACGgcuGCGAGg -3'
miRNA:   3'- -UGCUCGAGCAACG-Gcuc---AUGC---UGCUC- -5'
23402 3' -54.1 NC_005259.1 + 26381 0.67 0.806452
Target:  5'- gGCGAGCcUGUUgcucgcgauuccgacGCCGGGcGCGGCGGu -3'
miRNA:   3'- -UGCUCGaGCAA---------------CGGCUCaUGCUGCUc -5'
23402 3' -54.1 NC_005259.1 + 50983 0.67 0.802687
Target:  5'- gGCGAGCgg--UGUCGAGUcacCGGCGAa -3'
miRNA:   3'- -UGCUCGagcaACGGCUCAu--GCUGCUc -5'
23402 3' -54.1 NC_005259.1 + 31168 0.67 0.793155
Target:  5'- uCGAGCUCGcccuugaGCC-AGU-CGGCGAGg -3'
miRNA:   3'- uGCUCGAGCaa-----CGGcUCAuGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 57233 0.68 0.76362
Target:  5'- -gGGGUcggagauccacgUCGUUGCCGGgaacaguccGUugGGCGAGg -3'
miRNA:   3'- ugCUCG------------AGCAACGGCU---------CAugCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 42443 0.68 0.757563
Target:  5'- aGCGuGUUCGgcguccaacagucGCCGAcUACGGCGAGg -3'
miRNA:   3'- -UGCuCGAGCaa-----------CGGCUcAUGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 33363 0.68 0.757563
Target:  5'- gGCGAGgUCaugacucuccuaccgGUccGCCGAGcGCGACGAGc -3'
miRNA:   3'- -UGCUCgAG---------------CAa-CGGCUCaUGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 45957 0.68 0.753499
Target:  5'- cACGuuGCcgaCGUUGCCGAGcuUGGCGAGu -3'
miRNA:   3'- -UGCu-CGa--GCAACGGCUCauGCUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 10434 0.68 0.711919
Target:  5'- gGCGAGCUCGacaUCGAGUGgcuCGACGGc -3'
miRNA:   3'- -UGCUCGAGCaacGGCUCAU---GCUGCUc -5'
23402 3' -54.1 NC_005259.1 + 53534 0.68 0.711919
Target:  5'- cACGGGCUCGgUGCCcGGUGuCGGCu-- -3'
miRNA:   3'- -UGCUCGAGCaACGGcUCAU-GCUGcuc -5'
23402 3' -54.1 NC_005259.1 + 11406 0.69 0.701306
Target:  5'- aGCGguuucGGCUCGUgGCCG-GUGCaACGGGg -3'
miRNA:   3'- -UGC-----UCGAGCAaCGGCuCAUGcUGCUC- -5'
23402 3' -54.1 NC_005259.1 + 44358 0.69 0.679894
Target:  5'- cACG-GCUCGUUGCCGAGgcuCGcCa-- -3'
miRNA:   3'- -UGCuCGAGCAACGGCUCau-GCuGcuc -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.