miRNA display CGI


Results 1 - 20 of 58 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
28056 3' -53.6 NC_005887.1 + 11221 0.66 0.739939
Target:  5'- aGgcgUGCGC-CGGaaauauacGGUCGAUgGCCGCGa -3'
miRNA:   3'- gCaa-ACGCGaGCU--------UCGGUUA-CGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 22778 0.66 0.729057
Target:  5'- uCGUUg--GCUCGAcGCCGGcgcgGCCGCu -3'
miRNA:   3'- -GCAAacgCGAGCUuCGGUUa---CGGCGc -5'
28056 3' -53.6 NC_005887.1 + 35866 0.66 0.729057
Target:  5'- --aUUGCGCUCGGcAGacaccgCGAcGCCGCGc -3'
miRNA:   3'- gcaAACGCGAGCU-UCg-----GUUaCGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 8566 0.66 0.729057
Target:  5'- gGUccGCGCUUggugGAAGCCcggcacGCCGCGc -3'
miRNA:   3'- gCAaaCGCGAG----CUUCGGuua---CGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 36861 0.66 0.729057
Target:  5'- ----gGUGCU-GcGGCCGGUGCUGCGc -3'
miRNA:   3'- gcaaaCGCGAgCuUCGGUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 35531 0.66 0.718072
Target:  5'- ----aGCGCuUCGAAGUCAGcGCCGaUGg -3'
miRNA:   3'- gcaaaCGCG-AGCUUCGGUUaCGGC-GC- -5'
28056 3' -53.6 NC_005887.1 + 14075 0.66 0.718072
Target:  5'- ----cGCGCUCGGcguGCCGAUGauGCu -3'
miRNA:   3'- gcaaaCGCGAGCUu--CGGUUACggCGc -5'
28056 3' -53.6 NC_005887.1 + 13375 0.66 0.706996
Target:  5'- gCGaugGCGCUCGcgcugaAGGCCGGcGCgGCGg -3'
miRNA:   3'- -GCaaaCGCGAGC------UUCGGUUaCGgCGC- -5'
28056 3' -53.6 NC_005887.1 + 34268 0.66 0.706996
Target:  5'- ----aGCGCUCGcGGCUugcgcAUGCCGUc -3'
miRNA:   3'- gcaaaCGCGAGCuUCGGu----UACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 26830 0.66 0.703658
Target:  5'- gCGcgUGCGCgagCGGgcgcgucugccgguAGCCGuUGCCGCc -3'
miRNA:   3'- -GCaaACGCGa--GCU--------------UCGGUuACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 13078 0.66 0.695842
Target:  5'- cCGUggaacgcgGCGCUCGAucGCgGAgUGCUGCa -3'
miRNA:   3'- -GCAaa------CGCGAGCUu-CGgUU-ACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 4117 0.66 0.694723
Target:  5'- ----aGCGCUCGAccaucccGGCCAcgcgcaagGCUGCGc -3'
miRNA:   3'- gcaaaCGCGAGCU-------UCGGUua------CGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 35736 0.67 0.684623
Target:  5'- ----gGCGUugUCGGAuCCGGUGCCGCc -3'
miRNA:   3'- gcaaaCGCG--AGCUUcGGUUACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 26544 0.67 0.684623
Target:  5'- ---cUGCGcCUCGuGGUCAGugacUGCCGCa -3'
miRNA:   3'- gcaaACGC-GAGCuUCGGUU----ACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 24922 0.67 0.684623
Target:  5'- ----aGCGCUCGAcgAGCgCGAuguucuucgccUGCCGCc -3'
miRNA:   3'- gcaaaCGCGAGCU--UCG-GUU-----------ACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 16191 0.67 0.684623
Target:  5'- ---cUGCGCgaaGAGGCCGc-GCUGCGa -3'
miRNA:   3'- gcaaACGCGag-CUUCGGUuaCGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 1489 0.67 0.684623
Target:  5'- gCGUgcgGCGCUCGcgcGgCGcgGCCGUGc -3'
miRNA:   3'- -GCAaa-CGCGAGCuu-CgGUuaCGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 15896 0.67 0.673349
Target:  5'- ---gUGCGCUCGAcgcgcagcuGGCCGAccUGCguuccgCGCGg -3'
miRNA:   3'- gcaaACGCGAGCU---------UCGGUU--ACG------GCGC- -5'
28056 3' -53.6 NC_005887.1 + 12738 0.67 0.673349
Target:  5'- ---aUGCGCUCGAucgcGCCGc-GCUGCa -3'
miRNA:   3'- gcaaACGCGAGCUu---CGGUuaCGGCGc -5'
28056 3' -53.6 NC_005887.1 + 18382 0.67 0.662035
Target:  5'- gCGccgGCGCUCGcgaacccgauGGCCuacGCCGCGg -3'
miRNA:   3'- -GCaaaCGCGAGCu---------UCGGuuaCGGCGC- -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.