miRNA display CGI


Results 1 - 20 of 25 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
30448 3' -56.4 NC_006548.1 + 28038 0.65 0.558352
Target:  5'- cGCGGcccugcaGGAGGccuaugguccagccUCACaGCAGGCGGCugGCGGc -3'
miRNA:   3'- -UGCU-------UCUUC--------------AGUG-CGUCCGCCG--CGUC- -5'
30448 3' -56.4 NC_006548.1 + 13314 0.66 0.540741
Target:  5'- cGCGAGuGAAGaCACagcgagggauaGCAGuaGGCGCAGc -3'
miRNA:   3'- -UGCUU-CUUCaGUG-----------CGUCcgCCGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 33387 0.66 0.529829
Target:  5'- cACGcAGGgcGUacaGCAGGCuGCGCAGc -3'
miRNA:   3'- -UGC-UUCuuCAgugCGUCCGcCGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 29800 0.67 0.487066
Target:  5'- cCGAucgGGAAGUCAUcaucCGGGCGGCGg-- -3'
miRNA:   3'- uGCU---UCUUCAGUGc---GUCCGCCGCguc -5'
30448 3' -56.4 NC_006548.1 + 17770 0.67 0.466301
Target:  5'- -gGAAGGagAGUCcgcCGUAuGCGGCGCGGg -3'
miRNA:   3'- ugCUUCU--UCAGu--GCGUcCGCCGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 19106 0.67 0.456092
Target:  5'- gGCGAgcacuGGAcGUgcucaACGCGGGCaGCGCAGc -3'
miRNA:   3'- -UGCU-----UCUuCAg----UGCGUCCGcCGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 35942 0.67 0.456092
Target:  5'- gGCGAGuuGGccggCAgGguGGCGGCGCGc -3'
miRNA:   3'- -UGCUUcuUCa---GUgCguCCGCCGCGUc -5'
30448 3' -56.4 NC_006548.1 + 32697 0.68 0.436042
Target:  5'- uCGAAGccGAGUUcuACGCAGaGgGGCGCGa -3'
miRNA:   3'- uGCUUC--UUCAG--UGCGUC-CgCCGCGUc -5'
30448 3' -56.4 NC_006548.1 + 28471 0.68 0.41651
Target:  5'- uACGAAGAAG-CACucaGCaAGGCacaaGCGCAGa -3'
miRNA:   3'- -UGCUUCUUCaGUG---CG-UCCGc---CGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 23553 0.68 0.41651
Target:  5'- gGCGguGggGUUcCGCAGGUacuGGCGCc- -3'
miRNA:   3'- -UGCuuCuuCAGuGCGUCCG---CCGCGuc -5'
30448 3' -56.4 NC_006548.1 + 19374 0.68 0.406947
Target:  5'- aGCGcAGcAGGUUGCGCAGGUGGC-CGu -3'
miRNA:   3'- -UGCuUC-UUCAGUGCGUCCGCCGcGUc -5'
30448 3' -56.4 NC_006548.1 + 7999 0.68 0.388239
Target:  5'- cGCGccGGA-UgAUGCAGGCGGCGCu- -3'
miRNA:   3'- -UGCuuCUUcAgUGCGUCCGCCGCGuc -5'
30448 3' -56.4 NC_006548.1 + 28839 0.69 0.361258
Target:  5'- -----aGGGUCGCcCAGGCGGCGCGa -3'
miRNA:   3'- ugcuucUUCAGUGcGUCCGCCGCGUc -5'
30448 3' -56.4 NC_006548.1 + 22083 0.69 0.361258
Target:  5'- gACGgcGAAGg-AUGguGGCGGUGCGa -3'
miRNA:   3'- -UGCuuCUUCagUGCguCCGCCGCGUc -5'
30448 3' -56.4 NC_006548.1 + 19943 0.69 0.35256
Target:  5'- gGCGggGAGGaUugGCAGaGUGGCGg-- -3'
miRNA:   3'- -UGCuuCUUCaGugCGUC-CGCCGCguc -5'
30448 3' -56.4 NC_006548.1 + 33304 0.69 0.35256
Target:  5'- cGCGAGGAg--CAUGCGGcGCuGCGCAGc -3'
miRNA:   3'- -UGCUUCUucaGUGCGUC-CGcCGCGUC- -5'
30448 3' -56.4 NC_006548.1 + 22903 0.7 0.335611
Target:  5'- gGCGAuucAGUCGCGC-GGCGGCGa-- -3'
miRNA:   3'- -UGCUucuUCAGUGCGuCCGCCGCguc -5'
30448 3' -56.4 NC_006548.1 + 26093 0.7 0.295879
Target:  5'- -gGAAGAugcGGUCA-GCgAGGCGGCGCu- -3'
miRNA:   3'- ugCUUCU---UCAGUgCG-UCCGCCGCGuc -5'
30448 3' -56.4 NC_006548.1 + 7778 0.7 0.295879
Target:  5'- cGCGAGGAcaAGgaaGCGCAGG-GGCGCc- -3'
miRNA:   3'- -UGCUUCU--UCag-UGCGUCCgCCGCGuc -5'
30448 3' -56.4 NC_006548.1 + 33946 0.71 0.273137
Target:  5'- aGCGAccuGGAGGUUGCGCAGcuguaccGUGGCGCu- -3'
miRNA:   3'- -UGCU---UCUUCAGUGCGUC-------CGCCGCGuc -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.