miRNA display CGI


Results 1 - 12 of 12 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
28015 5' -57.2 NC_005887.1 + 32583 1.1 0.000398
Target:  5'- uGCCGAUCAGCAGGCUGUCGGACUCCAc -3'
miRNA:   3'- -CGGCUAGUCGUCCGACAGCCUGAGGU- -5'
28015 5' -57.2 NC_005887.1 + 32244 0.78 0.084359
Target:  5'- aGCCGAUCAGCuGGCcGUCGGcGCgggCCGc -3'
miRNA:   3'- -CGGCUAGUCGuCCGaCAGCC-UGa--GGU- -5'
28015 5' -57.2 NC_005887.1 + 15618 0.75 0.144728
Target:  5'- cGUCGcgCAGCAGGCgGcCGGGCUCg- -3'
miRNA:   3'- -CGGCuaGUCGUCCGaCaGCCUGAGgu -5'
28015 5' -57.2 NC_005887.1 + 40368 0.7 0.297438
Target:  5'- aGCCGGcCGGCAGGUUGUCGauguucucGGCcgCCGg -3'
miRNA:   3'- -CGGCUaGUCGUCCGACAGC--------CUGa-GGU- -5'
28015 5' -57.2 NC_005887.1 + 27094 0.7 0.304993
Target:  5'- cGCCGcgCAGCAcugcGGCUGccugcuUCGGGCcgCCGu -3'
miRNA:   3'- -CGGCuaGUCGU----CCGAC------AGCCUGa-GGU- -5'
28015 5' -57.2 NC_005887.1 + 40866 0.69 0.361976
Target:  5'- cGCCGcgCgAGCGccgcacgccgucGGC-GUCGGGCUCCu -3'
miRNA:   3'- -CGGCuaG-UCGU------------CCGaCAGCCUGAGGu -5'
28015 5' -57.2 NC_005887.1 + 8423 0.68 0.388565
Target:  5'- cGCCG-UCGGCAGGUcgacGUCGaaGGCUUCAc -3'
miRNA:   3'- -CGGCuAGUCGUCCGa---CAGC--CUGAGGU- -5'
28015 5' -57.2 NC_005887.1 + 22266 0.67 0.455352
Target:  5'- uGgCGcgCAGCAGGCgaUCGGAUUUCu -3'
miRNA:   3'- -CgGCuaGUCGUCCGacAGCCUGAGGu -5'
28015 5' -57.2 NC_005887.1 + 14184 0.66 0.496184
Target:  5'- cGUCGAUU-GCAcGcGCUGUCGGGCgcggCCu -3'
miRNA:   3'- -CGGCUAGuCGU-C-CGACAGCCUGa---GGu -5'
28015 5' -57.2 NC_005887.1 + 11538 0.66 0.542902
Target:  5'- aGCUGAUCAGCAGcucggcgcgcagcgcGCgGcggucgcggaaUCGGGCUUCAa -3'
miRNA:   3'- -CGGCUAGUCGUC---------------CGaC-----------AGCCUGAGGU- -5'
28015 5' -57.2 NC_005887.1 + 36305 0.66 0.549391
Target:  5'- gGCCGAUCuGCGcGGCgGUC-GACgCCGc -3'
miRNA:   3'- -CGGCUAGuCGU-CCGaCAGcCUGaGGU- -5'
28015 5' -57.2 NC_005887.1 + 29704 0.66 0.549391
Target:  5'- cGCCGAcccacUCGuaaccuGCGGGCaguggcugGUCGGGCUUCu -3'
miRNA:   3'- -CGGCU-----AGU------CGUCCGa-------CAGCCUGAGGu -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.