miRNA display CGI


Results 1 - 20 of 36 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
11921 3' -58.3 NC_003278.1 + 20099 0.66 0.410669
Target:  5'- -aGGUccaugUCGCCcGCGGCUgccaGGuuGAGCAu -3'
miRNA:   3'- gaCCA-----AGUGGuCGUCGG----UCggCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 16825 0.66 0.410669
Target:  5'- -cGGaaacUCACCGGacucCGGCCAGUCGcGCAg -3'
miRNA:   3'- gaCCa---AGUGGUC----GUCGGUCGGCuCGU- -5'
11921 3' -58.3 NC_003278.1 + 22096 0.66 0.4078
Target:  5'- -gGGUgaucgcgucgUCGCCgcgaccgacgaacuGGCGcGCCGGCUGGGCAc -3'
miRNA:   3'- gaCCA----------AGUGG--------------UCGU-CGGUCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 22814 0.66 0.400213
Target:  5'- -cGGUgcucgCGCCGGCgcuggcgGGCCuGCCGAuccuGCAg -3'
miRNA:   3'- gaCCAa----GUGGUCG-------UCGGuCGGCU----CGU- -5'
11921 3' -58.3 NC_003278.1 + 21608 0.66 0.390857
Target:  5'- --cGUUCgACCAGCcgcugcuGGCCAuGCUGGGCGa -3'
miRNA:   3'- gacCAAG-UGGUCG-------UCGGU-CGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 21982 0.66 0.386233
Target:  5'- gUGGcgacaCGCCAGCAGCagccgcaucggugccCAGCCGGcGCGc -3'
miRNA:   3'- gACCaa---GUGGUCGUCG---------------GUCGGCU-CGU- -5'
11921 3' -58.3 NC_003278.1 + 7674 0.66 0.38256
Target:  5'- -cGGUUUcuACCucGCGGCacacggcaUAGCCGAGCGg -3'
miRNA:   3'- gaCCAAG--UGGu-CGUCG--------GUCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 26148 0.66 0.373479
Target:  5'- uUGGUUCAgcCCAauacgcuugcGCucAGCCuguAGCCGAGCGc -3'
miRNA:   3'- gACCAAGU--GGU----------CG--UCGG---UCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 28100 0.67 0.35576
Target:  5'- cCUGGUUCAUCcGCuGCgGGCgCG-GCAa -3'
miRNA:   3'- -GACCAAGUGGuCGuCGgUCG-GCuCGU- -5'
11921 3' -58.3 NC_003278.1 + 20329 0.67 0.347126
Target:  5'- cCUGGa-CGCCAGC-GUU-GCCGAGCAg -3'
miRNA:   3'- -GACCaaGUGGUCGuCGGuCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 21467 0.67 0.347126
Target:  5'- -aGGgccucggCGCCGGCcaGGCCGGCCcgcuGGGCGu -3'
miRNA:   3'- gaCCaa-----GUGGUCG--UCGGUCGG----CUCGU- -5'
11921 3' -58.3 NC_003278.1 + 19491 0.67 0.338642
Target:  5'- -gGGUUgcCGgCGGCGGCCAucuGCUGAGCc -3'
miRNA:   3'- gaCCAA--GUgGUCGUCGGU---CGGCUCGu -5'
11921 3' -58.3 NC_003278.1 + 23244 0.67 0.32213
Target:  5'- ----cUCGCCAGgGGCCGGCCGGa-- -3'
miRNA:   3'- gaccaAGUGGUCgUCGGUCGGCUcgu -5'
11921 3' -58.3 NC_003278.1 + 33205 0.67 0.314102
Target:  5'- -cGGUUcCGCCGGCuG-CGGCCGAGg- -3'
miRNA:   3'- gaCCAA-GUGGUCGuCgGUCGGCUCgu -5'
11921 3' -58.3 NC_003278.1 + 27243 0.68 0.309359
Target:  5'- aUGGggagCACCAGCauuGGCCgcucgaggcccgaggGGCUGAGCu -3'
miRNA:   3'- gACCaa--GUGGUCG---UCGG---------------UCGGCUCGu -5'
11921 3' -58.3 NC_003278.1 + 11931 0.68 0.306227
Target:  5'- -cGGcgaUGCCcaaGGCAGCCAGCCGgucAGCAg -3'
miRNA:   3'- gaCCaa-GUGG---UCGUCGGUCGGC---UCGU- -5'
11921 3' -58.3 NC_003278.1 + 2769 0.68 0.306227
Target:  5'- aCUGGcgCACCAGCuGCgCGacGCCaGAGCc -3'
miRNA:   3'- -GACCaaGUGGUCGuCG-GU--CGG-CUCGu -5'
11921 3' -58.3 NC_003278.1 + 429 0.68 0.269122
Target:  5'- gCUGGUUCACUgaaAGUAcCCAGUaCGGGCGg -3'
miRNA:   3'- -GACCAAGUGG---UCGUcGGUCG-GCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 9073 0.69 0.255327
Target:  5'- -cGGUgcCGCCGGCauAGCCGcCCGGGCGa -3'
miRNA:   3'- gaCCAa-GUGGUCG--UCGGUcGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 32354 0.69 0.248649
Target:  5'- -gGGUUCGCCuggcacuGguGCgAGCCG-GCAg -3'
miRNA:   3'- gaCCAAGUGGu------CguCGgUCGGCuCGU- -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.