miRNA display CGI


Results 1 - 16 of 16 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
28197 5' -49.4 NC_005891.1 + 10762 0.66 0.926429
Target:  5'- -gGAACGCUGUcuCCAACG-GAGUUGg -3'
miRNA:   3'- ugCUUGCGGCGc-GGUUGCuUUUAACg -5'
28197 5' -49.4 NC_005891.1 + 28269 0.66 0.926429
Target:  5'- cCGGACGCCGaGUUGACuuuAGAAUUGUg -3'
miRNA:   3'- uGCUUGCGGCgCGGUUGc--UUUUAACG- -5'
28197 5' -49.4 NC_005891.1 + 35083 0.66 0.920162
Target:  5'- gGCGAGCGCacaCGCaaGUCAACuGAAGcUGCg -3'
miRNA:   3'- -UGCUUGCG---GCG--CGGUUGcUUUUaACG- -5'
28197 5' -49.4 NC_005891.1 + 39221 0.66 0.920162
Target:  5'- gACaGACGCC-CGUCGgACGggGGUUcGCg -3'
miRNA:   3'- -UGcUUGCGGcGCGGU-UGCuuUUAA-CG- -5'
28197 5' -49.4 NC_005891.1 + 26472 0.66 0.920162
Target:  5'- uUGAcacGCGCgGCGgCGAUGAAGAUucaUGUa -3'
miRNA:   3'- uGCU---UGCGgCGCgGUUGCUUUUA---ACG- -5'
28197 5' -49.4 NC_005891.1 + 7222 0.66 0.912907
Target:  5'- --aAGCGCgGCcugcaaucggaccGCCAAUGAuGAUUGCg -3'
miRNA:   3'- ugcUUGCGgCG-------------CGGUUGCUuUUAACG- -5'
28197 5' -49.4 NC_005891.1 + 11194 0.66 0.906692
Target:  5'- cGCGGAguuauugcCGCCuGCGCCGcCGAAcgccccGUUGCc -3'
miRNA:   3'- -UGCUU--------GCGG-CGCGGUuGCUUu-----UAACG- -5'
28197 5' -49.4 NC_005891.1 + 31735 0.68 0.835335
Target:  5'- cCGAuACGCCGCGCugucuccgCAGCGAAucgccuuuuuugUGCg -3'
miRNA:   3'- uGCU-UGCGGCGCG--------GUUGCUUuua---------ACG- -5'
28197 5' -49.4 NC_005891.1 + 22056 0.69 0.811973
Target:  5'- aACGAGCGCgGCaaucGCUAcgGCGAuuuucaggAAAUUGCc -3'
miRNA:   3'- -UGCUUGCGgCG----CGGU--UGCU--------UUUAACG- -5'
28197 5' -49.4 NC_005891.1 + 8730 0.69 0.811973
Target:  5'- -aGAGCGCCGaCuaCAGCGAAAcguccaUGCa -3'
miRNA:   3'- ugCUUGCGGC-GcgGUUGCUUUua----ACG- -5'
28197 5' -49.4 NC_005891.1 + 39424 0.69 0.801866
Target:  5'- gGCGGAgGCCGaUGCCAAgGggGc--GCa -3'
miRNA:   3'- -UGCUUgCGGC-GCGGUUgCuuUuaaCG- -5'
28197 5' -49.4 NC_005891.1 + 3715 0.69 0.770391
Target:  5'- uGCGAgccuGCGCUuuuuCGCCAACGAAug--GCg -3'
miRNA:   3'- -UGCU----UGCGGc---GCGGUUGCUUuuaaCG- -5'
28197 5' -49.4 NC_005891.1 + 13852 0.7 0.748579
Target:  5'- gACGAugGacgacgcaaaccCUGUGCCGACGGAGug-GCa -3'
miRNA:   3'- -UGCUugC------------GGCGCGGUUGCUUUuaaCG- -5'
28197 5' -49.4 NC_005891.1 + 11023 0.74 0.529557
Target:  5'- uGCGc-CGCCGcCGCCuauGACGAugGUUGCg -3'
miRNA:   3'- -UGCuuGCGGC-GCGG---UUGCUuuUAACG- -5'
28197 5' -49.4 NC_005891.1 + 27422 0.74 0.51831
Target:  5'- uGCGGugGCCGauagcuuaggcaUGCCAugGGAGuggUGCg -3'
miRNA:   3'- -UGCUugCGGC------------GCGGUugCUUUua-ACG- -5'
28197 5' -49.4 NC_005891.1 + 8762 1.11 0.001958
Target:  5'- uACGAACGCCGCGCCAACGAAAAUUGCc -3'
miRNA:   3'- -UGCUUGCGGCGCGGUUGCUUUUAACG- -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.