miRNA display CGI


Results 1 - 20 of 139 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
24378 3' -56.1 NC_005264.1 + 113487 0.66 0.905284
Target:  5'- -----cGCGCCGaUCUUGCCGC-GUUCc -3'
miRNA:   3'- ugcuuuUGCGGC-GGAACGGCGaCGAG- -5'
24378 3' -56.1 NC_005264.1 + 10457 0.67 0.851195
Target:  5'- aGCGGAu-CGCCGCCgauagGCCGgaucccggucggaacCUGCUa -3'
miRNA:   3'- -UGCUUuuGCGGCGGaa---CGGC---------------GACGAg -5'
24378 3' -56.1 NC_005264.1 + 64799 0.67 0.848004
Target:  5'- aACGAGu-UGCCGUUaaUUGCCGCgagGCUg -3'
miRNA:   3'- -UGCUUuuGCGGCGG--AACGGCGa--CGAg -5'
24378 3' -56.1 NC_005264.1 + 126359 1.08 0.003004
Target:  5'- cACGAAAACGCCGCCUUGCCGCUGCUCc -3'
miRNA:   3'- -UGCUUUUGCGGCGGAACGGCGACGAG- -5'
24378 3' -56.1 NC_005264.1 + 54912 0.66 0.898915
Target:  5'- cGCGAAGgucgcgGCGCUGCUggcgaacgGCUGCgagugGCUCc -3'
miRNA:   3'- -UGCUUU------UGCGGCGGaa------CGGCGa----CGAG- -5'
24378 3' -56.1 NC_005264.1 + 128050 0.66 0.885478
Target:  5'- cGCGucGAugGCCGCCc-GCaugaGCgGCUCa -3'
miRNA:   3'- -UGCu-UUugCGGCGGaaCGg---CGaCGAG- -5'
24378 3' -56.1 NC_005264.1 + 97239 0.66 0.881268
Target:  5'- cGCGAAcgcagcagcaagauGugGCCGCCgggccuuggcacggUagugGCCGCUGcCUCg -3'
miRNA:   3'- -UGCUU--------------UugCGGCGG--------------Aa---CGGCGAC-GAG- -5'
24378 3' -56.1 NC_005264.1 + 72126 0.66 0.878417
Target:  5'- -aGGGAGCGCCGCC-UGCCGg----- -3'
miRNA:   3'- ugCUUUUGCGGCGGaACGGCgacgag -5'
24378 3' -56.1 NC_005264.1 + 158791 0.67 0.866659
Target:  5'- gACGAAGAggaggaccaauuauuCGCCgagGCCUUGCCcCcGCUCu -3'
miRNA:   3'- -UGCUUUU---------------GCGG---CGGAACGGcGaCGAG- -5'
24378 3' -56.1 NC_005264.1 + 38094 0.67 0.861341
Target:  5'- aACGGAGAgaggauuuguuuucCGCCGCCaggcgUUGcCCGCgcGCUCu -3'
miRNA:   3'- -UGCUUUU--------------GCGGCGG-----AAC-GGCGa-CGAG- -5'
24378 3' -56.1 NC_005264.1 + 101039 0.67 0.863633
Target:  5'- gGCGAugccCGCgGCCcggUGgaGCUGCUCg -3'
miRNA:   3'- -UGCUuuu-GCGgCGGa--ACggCGACGAG- -5'
24378 3' -56.1 NC_005264.1 + 94112 0.67 0.871134
Target:  5'- cCGAGguucuGGCGCCGCUggUGgaaagguacCCGCUGCUg -3'
miRNA:   3'- uGCUU-----UUGCGGCGGa-AC---------GGCGACGAg -5'
24378 3' -56.1 NC_005264.1 + 38384 0.66 0.905284
Target:  5'- gGCGAGAGCGgcgaCGCCgagacagaUGCCGCguacgcccUGCUg -3'
miRNA:   3'- -UGCUUUUGCg---GCGGa-------ACGGCG--------ACGAg -5'
24378 3' -56.1 NC_005264.1 + 135377 0.67 0.863633
Target:  5'- -aGAAAAUGUC-CUUUGCUGCgccGCUCg -3'
miRNA:   3'- ugCUUUUGCGGcGGAACGGCGa--CGAG- -5'
24378 3' -56.1 NC_005264.1 + 31459 0.66 0.905284
Target:  5'- gACGAGAGCGUCGCCgaugGgCGUggauggUGCg- -3'
miRNA:   3'- -UGCUUUUGCGGCGGaa--CgGCG------ACGag -5'
24378 3' -56.1 NC_005264.1 + 10555 0.67 0.871134
Target:  5'- cGCGGAu-CG-CGCgUUcGCCGCUGCUUc -3'
miRNA:   3'- -UGCUUuuGCgGCGgAA-CGGCGACGAG- -5'
24378 3' -56.1 NC_005264.1 + 63250 0.67 0.863633
Target:  5'- uCG-AAGCGCCcaGCa-UGCCGCUGCg- -3'
miRNA:   3'- uGCuUUUGCGG--CGgaACGGCGACGag -5'
24378 3' -56.1 NC_005264.1 + 4618 0.67 0.848004
Target:  5'- gGCGuAGGCGCguucucgaaaauCGCCggGCCGCUuCUCg -3'
miRNA:   3'- -UGCuUUUGCG------------GCGGaaCGGCGAcGAG- -5'
24378 3' -56.1 NC_005264.1 + 113676 0.66 0.898915
Target:  5'- cCGAAAcuUGCCGCg--GCCGCUGUg- -3'
miRNA:   3'- uGCUUUu-GCGGCGgaaCGGCGACGag -5'
24378 3' -56.1 NC_005264.1 + 104328 0.66 0.885478
Target:  5'- gGCGc-GACGCCGCUUacgaggaggUGCCGCUcagGCg- -3'
miRNA:   3'- -UGCuuUUGCGGCGGA---------ACGGCGA---CGag -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.