miRNA display CGI


Results 1 - 20 of 24 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
18951 5' -56.6 NC_004683.1 + 53924 0.66 0.654166
Target:  5'- cGCCGGGGugCAcGAGGUGGGgCaGAUu- -3'
miRNA:   3'- -UGGCUCUugGU-CUUCACCCgG-CUGca -5'
18951 5' -56.6 NC_004683.1 + 31620 0.66 0.654166
Target:  5'- aACCGAGcucGCCGGc-GU-GGCCGACGc -3'
miRNA:   3'- -UGGCUCu--UGGUCuuCAcCCGGCUGCa -5'
18951 5' -56.6 NC_004683.1 + 3967 0.66 0.654166
Target:  5'- gAUCGAGccGAUCAuGggGUGgcGGCCGugGUc -3'
miRNA:   3'- -UGGCUC--UUGGU-CuuCAC--CCGGCugCA- -5'
18951 5' -56.6 NC_004683.1 + 3420 0.66 0.643296
Target:  5'- uGCgUGAGGACgAGAAGgacGcGGCCGACa- -3'
miRNA:   3'- -UG-GCUCUUGgUCUUCa--C-CCGGCUGca -5'
18951 5' -56.6 NC_004683.1 + 6217 0.66 0.621536
Target:  5'- -aCGcGAACCAGccGcgcgacccguUGGGCCGGCGg -3'
miRNA:   3'- ugGCuCUUGGUCuuC----------ACCCGGCUGCa -5'
18951 5' -56.6 NC_004683.1 + 45636 0.66 0.621536
Target:  5'- gACCGuGGGCCAGAGGUugugguugucgcGGcgccgcugcuGCCGugGUu -3'
miRNA:   3'- -UGGCuCUUGGUCUUCA------------CC----------CGGCugCA- -5'
18951 5' -56.6 NC_004683.1 + 47149 0.66 0.621536
Target:  5'- aGCCGAGuACCGGAuccucGGGaaCCGACGc -3'
miRNA:   3'- -UGGCUCuUGGUCUuca--CCC--GGCUGCa -5'
18951 5' -56.6 NC_004683.1 + 4132 0.66 0.621536
Target:  5'- cACCGAGAACCGGAAcgacauGCCGuCGa -3'
miRNA:   3'- -UGGCUCUUGGUCUUcacc--CGGCuGCa -5'
18951 5' -56.6 NC_004683.1 + 23233 0.67 0.610664
Target:  5'- gAUCGguGGggUCAGAAGUcGGGUCGGuCGUc -3'
miRNA:   3'- -UGGC--UCuuGGUCUUCA-CCCGGCU-GCA- -5'
18951 5' -56.6 NC_004683.1 + 21858 0.67 0.578195
Target:  5'- cCCGuuGACuCAGAcggugAGUGGGCaGACGUa -3'
miRNA:   3'- uGGCucUUG-GUCU-----UCACCCGgCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 24587 0.68 0.535543
Target:  5'- cGCCGA--GCUcGAAGcUGGGuCCGACGUu -3'
miRNA:   3'- -UGGCUcuUGGuCUUC-ACCC-GGCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 56942 0.69 0.473853
Target:  5'- -aCGcAGAcCCcgGGggGUGGGUCGGCGUc -3'
miRNA:   3'- ugGC-UCUuGG--UCuuCACCCGGCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 53686 0.69 0.47086
Target:  5'- cGCCGcagcucggcggcgaAGAcgcgGCCGGcGGUGcGGCCGGCGUc -3'
miRNA:   3'- -UGGC--------------UCU----UGGUCuUCAC-CCGGCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 55159 0.7 0.434766
Target:  5'- cGCCGuagcGGAAC--GAGGUGaGGCCGGCGUu -3'
miRNA:   3'- -UGGC----UCUUGguCUUCAC-CCGGCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 26265 0.7 0.425289
Target:  5'- cGCCGAGGcaACCAGcAAGUGGucgaagcuGCuCGACGa -3'
miRNA:   3'- -UGGCUCU--UGGUC-UUCACC--------CG-GCUGCa -5'
18951 5' -56.6 NC_004683.1 + 20706 0.71 0.374581
Target:  5'- uGCCGGGuggGCCAGggGccacguugaauccgaUGGuGCCGAUGUu -3'
miRNA:   3'- -UGGCUCu--UGGUCuuC---------------ACC-CGGCUGCA- -5'
18951 5' -56.6 NC_004683.1 + 27775 0.72 0.337714
Target:  5'- uACCGAGAAUCGcGAAGUaGuGGCCGAgcuCGUg -3'
miRNA:   3'- -UGGCUCUUGGU-CUUCA-C-CCGGCU---GCA- -5'
18951 5' -56.6 NC_004683.1 + 20478 0.72 0.337714
Target:  5'- aGCCG-GAGgCGGAGGUgGGGCCgGugGUg -3'
miRNA:   3'- -UGGCuCUUgGUCUUCA-CCCGG-CugCA- -5'
18951 5' -56.6 NC_004683.1 + 31504 0.72 0.306551
Target:  5'- cGCCuGGGACCAGgcGUaGGCCGACa- -3'
miRNA:   3'- -UGGcUCUUGGUCuuCAcCCGGCUGca -5'
18951 5' -56.6 NC_004683.1 + 21962 0.72 0.306551
Target:  5'- cGCCGAGuucaccGGCCAGGcgGGUGGuGCUGGCGc -3'
miRNA:   3'- -UGGCUC------UUGGUCU--UCACC-CGGCUGCa -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.