miRNA display CGI


Results 1 - 17 of 17 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
3123 5' -53.8 NC_001493.1 + 20899 0.66 0.93312
Target:  5'- --gGGAUCCCCGgUGCcgcgGGagcgUACCCg -3'
miRNA:   3'- uugCUUGGGGGUgACGa---CCaa--AUGGG- -5'
3123 5' -53.8 NC_001493.1 + 40009 0.66 0.927807
Target:  5'- gAGCGGACCCCC-CUGUUccGUgcGCUCa -3'
miRNA:   3'- -UUGCUUGGGGGuGACGAc-CAaaUGGG- -5'
3123 5' -53.8 NC_001493.1 + 99686 0.66 0.927807
Target:  5'- gAACGGGaaCCCAC-GgaGGUggGCCCa -3'
miRNA:   3'- -UUGCUUggGGGUGaCgaCCAaaUGGG- -5'
3123 5' -53.8 NC_001493.1 + 20402 0.66 0.927807
Target:  5'- uGAUGAGCCCgaGCUGCcaGGUgacCCCg -3'
miRNA:   3'- -UUGCUUGGGggUGACGa-CCAaauGGG- -5'
3123 5' -53.8 NC_001493.1 + 50551 0.67 0.91642
Target:  5'- gGACGAGCCCgUgugGCUGGgu--CCCg -3'
miRNA:   3'- -UUGCUUGGGgGugaCGACCaaauGGG- -5'
3123 5' -53.8 NC_001493.1 + 47409 0.67 0.91642
Target:  5'- -uCGAACCCCCcCUGaUGGUguugacgACCg -3'
miRNA:   3'- uuGCUUGGGGGuGACgACCAaa-----UGGg -5'
3123 5' -53.8 NC_001493.1 + 93794 0.67 0.904023
Target:  5'- cGACGAGgCCgugaCCACgGCUGGUUU-CUCg -3'
miRNA:   3'- -UUGCUUgGG----GGUGaCGACCAAAuGGG- -5'
3123 5' -53.8 NC_001493.1 + 10054 0.67 0.904023
Target:  5'- uAGCGGuACCCCCuccuGCUGCUGcg--GCUCg -3'
miRNA:   3'- -UUGCU-UGGGGG----UGACGACcaaaUGGG- -5'
3123 5' -53.8 NC_001493.1 + 125608 0.67 0.904023
Target:  5'- uAGCGGuACCCCCuccuGCUGCUGcg--GCUCg -3'
miRNA:   3'- -UUGCU-UGGGGG----UGACGACcaaaUGGG- -5'
3123 5' -53.8 NC_001493.1 + 55087 0.68 0.890634
Target:  5'- gAGCGAGCUCCgg--GCUGGUcgGCUCa -3'
miRNA:   3'- -UUGCUUGGGGgugaCGACCAaaUGGG- -5'
3123 5' -53.8 NC_001493.1 + 120099 0.68 0.87628
Target:  5'- -uCGGugACCCCCGCcGCUgccgcgcccccgGGUgUGCCCa -3'
miRNA:   3'- uuGCU--UGGGGGUGaCGA------------CCAaAUGGG- -5'
3123 5' -53.8 NC_001493.1 + 4545 0.68 0.87628
Target:  5'- -uCGGugACCCCCGCcGCUgccgcgcccccgGGUgUGCCCa -3'
miRNA:   3'- uuGCU--UGGGGGUGaCGA------------CCAaAUGGG- -5'
3123 5' -53.8 NC_001493.1 + 74975 0.69 0.8339
Target:  5'- cAGCGGGCgCCCCGCUGCUgcaaGGggcaugacgacauCCCa -3'
miRNA:   3'- -UUGCUUG-GGGGUGACGA----CCaaau---------GGG- -5'
3123 5' -53.8 NC_001493.1 + 67190 0.69 0.810137
Target:  5'- cAACGAACaugugccuaCCCCAgcGCUGGUUUACUUc -3'
miRNA:   3'- -UUGCUUG---------GGGGUgaCGACCAAAUGGG- -5'
3123 5' -53.8 NC_001493.1 + 114677 0.7 0.79172
Target:  5'- -cUGAACCCCCugUccGUggGGUUgcugACCCg -3'
miRNA:   3'- uuGCUUGGGGGugA--CGa-CCAAa---UGGG- -5'
3123 5' -53.8 NC_001493.1 + 119708 1.1 0.00294
Target:  5'- cAACGAACCCCCACUGCUGGUUUACCCg -3'
miRNA:   3'- -UUGCUUGGGGGUGACGACCAAAUGGG- -5'
3123 5' -53.8 NC_001493.1 + 4153 1.1 0.00294
Target:  5'- cAACGAACCCCCACUGCUGGUUUACCCg -3'
miRNA:   3'- -UUGCUUGGGGGUGACGACCAAAUGGG- -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.