miRNA display CGI


Results 1 - 12 of 12 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
28507 3' -54.8 NC_005946.1 + 3845 0.66 0.88978
Target:  5'- -cUGGGGUcCAGGCCCcuggucuugACGagCCUCu -3'
miRNA:   3'- cuACUCCAaGUCCGGGa--------UGCa-GGAGu -5'
28507 3' -54.8 NC_005946.1 + 58651 0.66 0.88263
Target:  5'- uGAUGAGGacCGGGUCCgagaaacCGUCCa-- -3'
miRNA:   3'- -CUACUCCaaGUCCGGGau-----GCAGGagu -5'
28507 3' -54.8 NC_005946.1 + 37713 0.66 0.875239
Target:  5'- uGAUGGGGagCAGGUCCacugccacgACGcCCUCc -3'
miRNA:   3'- -CUACUCCaaGUCCGGGa--------UGCaGGAGu -5'
28507 3' -54.8 NC_005946.1 + 63550 0.66 0.85976
Target:  5'- -uUGGGccgUCGGGCCCcGCGUCgUCc -3'
miRNA:   3'- cuACUCca-AGUCCGGGaUGCAGgAGu -5'
28507 3' -54.8 NC_005946.1 + 35687 0.67 0.817309
Target:  5'- ----cGGggCAGGCCCUcagagucuuuAUGUCCUCc -3'
miRNA:   3'- cuacuCCaaGUCCGGGA----------UGCAGGAGu -5'
28507 3' -54.8 NC_005946.1 + 21790 0.68 0.789591
Target:  5'- uGGUGGGGUgguucugccacgUCAGGUgcgucaaggCCUACucgGUCCUCAu -3'
miRNA:   3'- -CUACUCCA------------AGUCCG---------GGAUG---CAGGAGU- -5'
28507 3' -54.8 NC_005946.1 + 62744 0.69 0.720031
Target:  5'- -uUGAGGUUgAGGgCCUugACGaCCUCGa -3'
miRNA:   3'- cuACUCCAAgUCCgGGA--UGCaGGAGU- -5'
28507 3' -54.8 NC_005946.1 + 28856 0.69 0.699269
Target:  5'- --gGGGGUcucaCGGGCUCUugGUCCUa- -3'
miRNA:   3'- cuaCUCCAa---GUCCGGGAugCAGGAgu -5'
28507 3' -54.8 NC_005946.1 + 22701 0.7 0.688791
Target:  5'- --cGAGGccuUUCAGGCCCcgcacagGCaGUCCUCu -3'
miRNA:   3'- cuaCUCC---AAGUCCGGGa------UG-CAGGAGu -5'
28507 3' -54.8 NC_005946.1 + 46399 0.72 0.561785
Target:  5'- uGGUGGGGUcCAGGCCCgaggccuugGCGUcuccCCUCu -3'
miRNA:   3'- -CUACUCCAaGUCCGGGa--------UGCA----GGAGu -5'
28507 3' -54.8 NC_005946.1 + 57699 0.73 0.500241
Target:  5'- cAUGAGGUUCAGaCCCUuuuuccucGCGUCUUCc -3'
miRNA:   3'- cUACUCCAAGUCcGGGA--------UGCAGGAGu -5'
28507 3' -54.8 NC_005946.1 + 55920 0.74 0.432506
Target:  5'- aGGUGGGGUgguUCAuGGCCaugaACGUCCUCGa -3'
miRNA:   3'- -CUACUCCA---AGU-CCGGga--UGCAGGAGU- -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.