miRNA display CGI


Results 1 - 20 of 26 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
19215 3' -54.3 NC_004684.1 + 45546 0.66 0.81327
Target:  5'- gGCCUUGcGGgcGGCCAUggaugCCCGgcUGAUc -3'
miRNA:   3'- -UGGAACaUCuuCCGGUG-----GGGCa-ACUG- -5'
19215 3' -54.3 NC_004684.1 + 15967 0.66 0.8076
Target:  5'- gGCCUUGgugAGGccgugacaccggcagAGGCCgaaacguccgGCUCCGggGACg -3'
miRNA:   3'- -UGGAACa--UCU---------------UCCGG----------UGGGGCaaCUG- -5'
19215 3' -54.3 NC_004684.1 + 506 0.66 0.803783
Target:  5'- gGCCgcgccGAAGGUCGCCaCCGgcgcUGACg -3'
miRNA:   3'- -UGGaacauCUUCCGGUGG-GGCa---ACUG- -5'
19215 3' -54.3 NC_004684.1 + 44416 0.66 0.803783
Target:  5'- ----------cGGCCACCUCGUUGGCg -3'
miRNA:   3'- uggaacaucuuCCGGUGGGGCAACUG- -5'
19215 3' -54.3 NC_004684.1 + 12515 0.66 0.794117
Target:  5'- cACgUUGUGcAGGGCCACgaCCGU-GGCa -3'
miRNA:   3'- -UGgAACAUcUUCCGGUGg-GGCAaCUG- -5'
19215 3' -54.3 NC_004684.1 + 25646 0.66 0.794117
Target:  5'- aACCgggUGUAGuuGGaCCGCCCgGUgaucugGAUg -3'
miRNA:   3'- -UGGa--ACAUCuuCC-GGUGGGgCAa-----CUG- -5'
19215 3' -54.3 NC_004684.1 + 56264 0.66 0.794117
Target:  5'- cACCUUGUGGAucaacAGGUCauagGCCUgGUcGGCg -3'
miRNA:   3'- -UGGAACAUCU-----UCCGG----UGGGgCAaCUG- -5'
19215 3' -54.3 NC_004684.1 + 2003 0.66 0.794117
Target:  5'- gGCCUgGgcGcuGGaCCGCCCCGacgUUGACc -3'
miRNA:   3'- -UGGAaCauCuuCC-GGUGGGGC---AACUG- -5'
19215 3' -54.3 NC_004684.1 + 51033 0.66 0.784281
Target:  5'- cACCggcaGGAugcGGCCACCgCCGgUGACg -3'
miRNA:   3'- -UGGaacaUCUu--CCGGUGG-GGCaACUG- -5'
19215 3' -54.3 NC_004684.1 + 47133 0.66 0.784281
Target:  5'- cGCCUcgGUGGcguAGGCgGCCCCGgUGcCc -3'
miRNA:   3'- -UGGAa-CAUCu--UCCGgUGGGGCaACuG- -5'
19215 3' -54.3 NC_004684.1 + 25885 0.66 0.784281
Target:  5'- gGCCUcGUAGcGGGCCauggacACCCgGUUGuCc -3'
miRNA:   3'- -UGGAaCAUCuUCCGG------UGGGgCAACuG- -5'
19215 3' -54.3 NC_004684.1 + 67069 0.66 0.771258
Target:  5'- cACCUcGUu--GGGCCGCCCggucuuggucccgaUGUUGGCa -3'
miRNA:   3'- -UGGAaCAucuUCCGGUGGG--------------GCAACUG- -5'
19215 3' -54.3 NC_004684.1 + 29067 0.67 0.762098
Target:  5'- cGCCUUGUccuuGAGcuuGGCCucggugaucgaCCCGUUGACc -3'
miRNA:   3'- -UGGAACAu---CUU---CCGGug---------GGGCAACUG- -5'
19215 3' -54.3 NC_004684.1 + 27007 0.67 0.753865
Target:  5'- gGCCUgcc-GAAGGCCGCCaCCGccGAg -3'
miRNA:   3'- -UGGAacauCUUCCGGUGG-GGCaaCUg -5'
19215 3' -54.3 NC_004684.1 + 53354 0.67 0.743462
Target:  5'- cGCCUUGcUGGucGGGUCGCCCUGgauGCg -3'
miRNA:   3'- -UGGAAC-AUCu-UCCGGUGGGGCaacUG- -5'
19215 3' -54.3 NC_004684.1 + 59455 0.67 0.739269
Target:  5'- gGCCUUGcGGAAGGCCuugccuggguucuCCaCCGgcUGGCu -3'
miRNA:   3'- -UGGAACaUCUUCCGGu------------GG-GGCa-ACUG- -5'
19215 3' -54.3 NC_004684.1 + 63126 0.67 0.732946
Target:  5'- uCCggGUAG-AGGCCAUUCCGccgGGCa -3'
miRNA:   3'- uGGaaCAUCuUCCGGUGGGGCaa-CUG- -5'
19215 3' -54.3 NC_004684.1 + 706 0.67 0.731889
Target:  5'- aGCCgccgGUGGAcGGCCuggcgcuccaacuACCCCGacGACa -3'
miRNA:   3'- -UGGaa--CAUCUuCCGG-------------UGGGGCaaCUG- -5'
19215 3' -54.3 NC_004684.1 + 4979 0.67 0.722328
Target:  5'- ---aUGUcGGAGGCCACUCCGc-GACg -3'
miRNA:   3'- uggaACAuCUUCCGGUGGGGCaaCUG- -5'
19215 3' -54.3 NC_004684.1 + 60717 0.67 0.711621
Target:  5'- gACC-UGUGc-AGGCCACuCCCGU-GGCa -3'
miRNA:   3'- -UGGaACAUcuUCCGGUG-GGGCAaCUG- -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.