miRNA display CGI


Results 1 - 19 of 19 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
20688 3' -55.2 NC_004688.1 + 69072 0.66 0.890398
Target:  5'- gACCGCGUuGGGGuccUCCGGGAucgGGCUg -3'
miRNA:   3'- gUGGCGCAuCUCUu--GGGCUCU---UCGGu -5'
20688 3' -55.2 NC_004688.1 + 57944 0.66 0.890398
Target:  5'- aACCGCGUgcgccugcuugaAGAGAAgaCCGGaAAGCCu -3'
miRNA:   3'- gUGGCGCA------------UCUCUUg-GGCUcUUCGGu -5'
20688 3' -55.2 NC_004688.1 + 40129 0.66 0.876074
Target:  5'- aGCCGUGUGGAG-GCCCGucaccguGUCAu -3'
miRNA:   3'- gUGGCGCAUCUCuUGGGCucuu---CGGU- -5'
20688 3' -55.2 NC_004688.1 + 67986 0.66 0.876074
Target:  5'- aCACCuCGUAGAG-GCCCucGuAGCCGg -3'
miRNA:   3'- -GUGGcGCAUCUCuUGGGcuCuUCGGU- -5'
20688 3' -55.2 NC_004688.1 + 97942 0.66 0.876074
Target:  5'- uGCCGaucuccaGGAGccGGCCCGAGAAGUCu -3'
miRNA:   3'- gUGGCgca----UCUC--UUGGGCUCUUCGGu -5'
20688 3' -55.2 NC_004688.1 + 7360 0.66 0.868564
Target:  5'- uCACCGgcuaCGUGGAGAGCgCCGccGAGaCCAu -3'
miRNA:   3'- -GUGGC----GCAUCUCUUG-GGCucUUC-GGU- -5'
20688 3' -55.2 NC_004688.1 + 94530 0.66 0.86083
Target:  5'- uCACCGaCGUcuGGGAAUuggCCGAGAagguGGCCGa -3'
miRNA:   3'- -GUGGC-GCAu-CUCUUG---GGCUCU----UCGGU- -5'
20688 3' -55.2 NC_004688.1 + 194 0.66 0.86083
Target:  5'- gACCGCcu-GAGAGCCaCGuGGAGCg- -3'
miRNA:   3'- gUGGCGcauCUCUUGG-GCuCUUCGgu -5'
20688 3' -55.2 NC_004688.1 + 33735 0.67 0.836348
Target:  5'- gACCG-GUGGAGGcCCCGGcGGcacGGCCAc -3'
miRNA:   3'- gUGGCgCAUCUCUuGGGCU-CU---UCGGU- -5'
20688 3' -55.2 NC_004688.1 + 87834 0.67 0.819035
Target:  5'- gGCCGgGgugAGGGcaaGGCuCUGAGAGGCCGu -3'
miRNA:   3'- gUGGCgCa--UCUC---UUG-GGCUCUUCGGU- -5'
20688 3' -55.2 NC_004688.1 + 110005 0.67 0.809203
Target:  5'- aCGCCGCGUGGAGcaggcgguguggcAGCgggaCGGGAAuGCCu -3'
miRNA:   3'- -GUGGCGCAUCUC-------------UUGg---GCUCUU-CGGu -5'
20688 3' -55.2 NC_004688.1 + 25288 0.68 0.801005
Target:  5'- cCGCCGCcUGGAGAaugauuccGCCCauaGAGGcGGCCAu -3'
miRNA:   3'- -GUGGCGcAUCUCU--------UGGG---CUCU-UCGGU- -5'
20688 3' -55.2 NC_004688.1 + 71402 0.68 0.791744
Target:  5'- gGCCGCGUAcgcGGAcggcaugcccgcACCUGAGAucGCCAg -3'
miRNA:   3'- gUGGCGCAUc--UCU------------UGGGCUCUu-CGGU- -5'
20688 3' -55.2 NC_004688.1 + 86688 0.68 0.763087
Target:  5'- cCGCC-CGUGGGGAuCUCGGGAggaAGCCc -3'
miRNA:   3'- -GUGGcGCAUCUCUuGGGCUCU---UCGGu -5'
20688 3' -55.2 NC_004688.1 + 87766 0.69 0.723208
Target:  5'- gAUgGCGUccGAGaAACCCGAGAcGCCGa -3'
miRNA:   3'- gUGgCGCAu-CUC-UUGGGCUCUuCGGU- -5'
20688 3' -55.2 NC_004688.1 + 86062 0.71 0.640108
Target:  5'- gGCCGCGc-GAGAugCCGAGGucGUCAu -3'
miRNA:   3'- gUGGCGCauCUCUugGGCUCUu-CGGU- -5'
20688 3' -55.2 NC_004688.1 + 62137 0.71 0.608582
Target:  5'- aGCUGC-UGGAGAAguacgacaucaCCGAGAAGCCAg -3'
miRNA:   3'- gUGGCGcAUCUCUUg----------GGCUCUUCGGU- -5'
20688 3' -55.2 NC_004688.1 + 87093 0.71 0.587643
Target:  5'- gCACCGCGUuGAcggccuucGAugCCGAGAccagaccauuGGCCAg -3'
miRNA:   3'- -GUGGCGCAuCU--------CUugGGCUCU----------UCGGU- -5'
20688 3' -55.2 NC_004688.1 + 44426 0.75 0.393571
Target:  5'- aCGCCGCGUGGAGGGauguCCCGAacgucgugGAGGCUu -3'
miRNA:   3'- -GUGGCGCAUCUCUU----GGGCU--------CUUCGGu -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.