miRNA display CGI


Results 1 - 20 of 46 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
27228 3' -56.9 NC_005832.1 + 91308 0.66 0.779726
Target:  5'- -gGCCAcGuccAGCUUGGCCAUgacGGCCg -3'
miRNA:   3'- uaCGGUuC---UCGAACCGGUGac-CUGGg -5'
27228 3' -56.9 NC_005832.1 + 32934 0.66 0.770057
Target:  5'- cUGUCAgcgGGAGCgaGGCCcaucaggaACUGGACggCCa -3'
miRNA:   3'- uACGGU---UCUCGaaCCGG--------UGACCUG--GG- -5'
27228 3' -56.9 NC_005832.1 + 49160 0.66 0.770057
Target:  5'- -gGgCGAGAGCgugUGGacCCAcCUGGGuCCCg -3'
miRNA:   3'- uaCgGUUCUCGa--ACC--GGU-GACCU-GGG- -5'
27228 3' -56.9 NC_005832.1 + 56519 0.66 0.770057
Target:  5'- -gGCCGgcaGGAG---GGCCAUaGGACCCc -3'
miRNA:   3'- uaCGGU---UCUCgaaCCGGUGaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 45810 0.66 0.760257
Target:  5'- -aGCCAucaccAGCUUguagaggacGGCCAuguacuCUGGACCCc -3'
miRNA:   3'- uaCGGUuc---UCGAA---------CCGGU------GACCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 36531 0.66 0.760257
Target:  5'- -cGCCAGG-GCcgggGGCCACaGGGCg- -3'
miRNA:   3'- uaCGGUUCuCGaa--CCGGUGaCCUGgg -5'
27228 3' -56.9 NC_005832.1 + 27646 0.66 0.760257
Target:  5'- -gGUCGAGGGgUUaacGGgCACgGGGCCCg -3'
miRNA:   3'- uaCGGUUCUCgAA---CCgGUGaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 88280 0.66 0.750335
Target:  5'- -gGuCCAGGAGCcUGGCCAg-GGuCCUc -3'
miRNA:   3'- uaC-GGUUCUCGaACCGGUgaCCuGGG- -5'
27228 3' -56.9 NC_005832.1 + 62401 0.66 0.750335
Target:  5'- -gGCCGcuGAuGUUUGGUCAC-GGAUCCg -3'
miRNA:   3'- uaCGGUu-CU-CGAACCGGUGaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 90910 0.67 0.724042
Target:  5'- -gGCCGAGGGCgggccccucaggaGGCUccuuacgaggcaGCUGGACgCCg -3'
miRNA:   3'- uaCGGUUCUCGaa-----------CCGG------------UGACCUG-GG- -5'
27228 3' -56.9 NC_005832.1 + 55309 0.67 0.719941
Target:  5'- --aCCAAcAGUUUGGCCACcucUGuGGCCCu -3'
miRNA:   3'- uacGGUUcUCGAACCGGUG---AC-CUGGG- -5'
27228 3' -56.9 NC_005832.1 + 52202 0.67 0.719941
Target:  5'- -gGaCCAGGAGCUUGcacauguuuGCCACggccaGGAgCCa -3'
miRNA:   3'- uaC-GGUUCUCGAAC---------CGGUGa----CCUgGG- -5'
27228 3' -56.9 NC_005832.1 + 7548 0.67 0.719941
Target:  5'- -gGcCCAGGAGCUccccgaGGgCAC-GGACCCc -3'
miRNA:   3'- uaC-GGUUCUCGAa-----CCgGUGaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 39500 0.67 0.709635
Target:  5'- -gGCCGAucccucuGCUccccugGGCCcCUGGGCCCu -3'
miRNA:   3'- uaCGGUUcu-----CGAa-----CCGGuGACCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 79881 0.67 0.688822
Target:  5'- -gGCCGaggagAGGGCggccaUGGCCuc-GGACCCu -3'
miRNA:   3'- uaCGGU-----UCUCGa----ACCGGugaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 18254 0.67 0.678334
Target:  5'- -cGCgAAG-GUgagGGCCAgUGGACUCa -3'
miRNA:   3'- uaCGgUUCuCGaa-CCGGUgACCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 10318 0.67 0.678334
Target:  5'- -cGUCAAGccCUcGGCCACcacccUGGACCCc -3'
miRNA:   3'- uaCGGUUCucGAaCCGGUG-----ACCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 42697 0.68 0.667806
Target:  5'- -gGCCAacaAGAGggUGgacGCCACcGGGCCCc -3'
miRNA:   3'- uaCGGU---UCUCgaAC---CGGUGaCCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 24384 0.68 0.657247
Target:  5'- cUGCCAuGAuCUUGgaGCUAUUGGACCUg -3'
miRNA:   3'- uACGGUuCUcGAAC--CGGUGACCUGGG- -5'
27228 3' -56.9 NC_005832.1 + 31446 0.68 0.657247
Target:  5'- -aGUCAGGGGCUUcaucuagacgGGCCACacGGccGCCCu -3'
miRNA:   3'- uaCGGUUCUCGAA----------CCGGUGa-CC--UGGG- -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.