miRNA display CGI


Results 1 - 20 of 35 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
23473 3' -52.2 NC_005259.1 + 62518 0.66 0.935524
Target:  5'- -----aGCGGUcaGCAcUUCCUCGGCCu -3'
miRNA:   3'- ggaguaUGCCGagCGU-AAGGAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 49212 0.66 0.935524
Target:  5'- uCCgUUGUGCGGgguuuaCUCGUcgUCggaCUCGACCg -3'
miRNA:   3'- -GG-AGUAUGCC------GAGCGuaAG---GAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 45434 0.66 0.930144
Target:  5'- gCCUCGUA-GGC-CGgAUcucggUCCUUGAUCg -3'
miRNA:   3'- -GGAGUAUgCCGaGCgUA-----AGGAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 62105 0.66 0.928477
Target:  5'- aUCUCGU-CGcGCUCGUAgucagUCaccgaggugaucguCUCGACCa -3'
miRNA:   3'- -GGAGUAuGC-CGAGCGUa----AG--------------GAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 67346 0.66 0.924492
Target:  5'- aCCaCGUAC-GCUCGCcgaCCUCGcGCCg -3'
miRNA:   3'- -GGaGUAUGcCGAGCGuaaGGAGC-UGG- -5'
23473 3' -52.2 NC_005259.1 + 8368 0.66 0.918568
Target:  5'- gCUCGgcgGCGGcCUCgGCAUcggcgagagCCUCGGCg -3'
miRNA:   3'- gGAGUa--UGCC-GAG-CGUAa--------GGAGCUGg -5'
23473 3' -52.2 NC_005259.1 + 41832 0.66 0.912373
Target:  5'- aCC-CAUuggauCGGCUCGa---CCUCGACg -3'
miRNA:   3'- -GGaGUAu----GCCGAGCguaaGGAGCUGg -5'
23473 3' -52.2 NC_005259.1 + 24722 0.67 0.899863
Target:  5'- gCCUCGgcgaucacgauugaUGCGGUguggggugccgaggCGCucaucgaaUCCUCGACCa -3'
miRNA:   3'- -GGAGU--------------AUGCCGa-------------GCGua------AGGAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 29806 0.67 0.892183
Target:  5'- aCCUCAgucgagACGaGgUCGCuaagcgCCUCGGCa -3'
miRNA:   3'- -GGAGUa-----UGC-CgAGCGuaa---GGAGCUGg -5'
23473 3' -52.2 NC_005259.1 + 4114 0.67 0.892183
Target:  5'- aCCUCG-GCGGcCUCGaCGUggCCaaGACCg -3'
miRNA:   3'- -GGAGUaUGCC-GAGC-GUAa-GGagCUGG- -5'
23473 3' -52.2 NC_005259.1 + 23527 0.67 0.884929
Target:  5'- aUCUCG-ACGGUgaaaaucagcCGCcg-CCUCGACCg -3'
miRNA:   3'- -GGAGUaUGCCGa---------GCGuaaGGAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 52208 0.67 0.884929
Target:  5'- gCUCAUG-GGCacCGCGUUCCgCGcCCg -3'
miRNA:   3'- gGAGUAUgCCGa-GCGUAAGGaGCuGG- -5'
23473 3' -52.2 NC_005259.1 + 29211 0.67 0.884929
Target:  5'- cCCcCGcAUGGUUCGCcagCCUCGGCg -3'
miRNA:   3'- -GGaGUaUGCCGAGCGuaaGGAGCUGg -5'
23473 3' -52.2 NC_005259.1 + 58856 0.67 0.877421
Target:  5'- cCCUCG---GGCUCGCcgUCgUCGucgucGCCu -3'
miRNA:   3'- -GGAGUaugCCGAGCGuaAGgAGC-----UGG- -5'
23473 3' -52.2 NC_005259.1 + 50939 0.67 0.877421
Target:  5'- --aCGaACGGCUCGUugcaUCCUUGGCUc -3'
miRNA:   3'- ggaGUaUGCCGAGCGua--AGGAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 54990 0.67 0.874347
Target:  5'- aCCUCAUcgaucuugugcuCGGCUCGCuuggcggucgUCUCGGCa -3'
miRNA:   3'- -GGAGUAu-----------GCCGAGCGuaa-------GGAGCUGg -5'
23473 3' -52.2 NC_005259.1 + 55704 0.68 0.861663
Target:  5'- gCCUCGUugAUGGC-CGCGagcaCCUCGcCCu -3'
miRNA:   3'- -GGAGUA--UGCCGaGCGUaa--GGAGCuGG- -5'
23473 3' -52.2 NC_005259.1 + 28829 0.68 0.836281
Target:  5'- -aUCA-ACGGCacCGCGUUCUacaaagUCGACCg -3'
miRNA:   3'- ggAGUaUGCCGa-GCGUAAGG------AGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 10579 0.68 0.836281
Target:  5'- gCCUCG-ACGGCgaaaUCGUcgUUgUUGACCu -3'
miRNA:   3'- -GGAGUaUGCCG----AGCGuaAGgAGCUGG- -5'
23473 3' -52.2 NC_005259.1 + 50012 0.68 0.827386
Target:  5'- cCCUCGUGCacgGGCgcugCGUAaUCCgcugUGGCCu -3'
miRNA:   3'- -GGAGUAUG---CCGa---GCGUaAGGa---GCUGG- -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.