miRNA display CGI


Results 1 - 20 of 42 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
28762 3' -43.6 NC_006146.1 + 1141 0.67 0.999983
Target:  5'- cGGug---CCCCCGCGAGGGu-- -3'
miRNA:   3'- aCCuuuaaGGGGGCGUUUUCuau -5'
28762 3' -43.6 NC_006146.1 + 2073 0.67 0.999983
Target:  5'- cGGug---CCCCCGCGAGGGu-- -3'
miRNA:   3'- aCCuuuaaGGGGGCGUUUUCuau -5'
28762 3' -43.6 NC_006146.1 + 3005 0.67 0.999983
Target:  5'- cGGug---CCCCCGCGAGGGu-- -3'
miRNA:   3'- aCCuuuaaGGGGGCGUUUUCuau -5'
28762 3' -43.6 NC_006146.1 + 3489 0.67 0.999988
Target:  5'- cUGGc--UUCCCCCGUAuccaccgcAGAGAUGa -3'
miRNA:   3'- -ACCuuuAAGGGGGCGU--------UUUCUAU- -5'
28762 3' -43.6 NC_006146.1 + 13449 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 16527 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 19605 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 22683 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 25761 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 28839 0.66 0.999999
Target:  5'- cGGAGGgaCCCCgGCAGcccGGGUGg -3'
miRNA:   3'- aCCUUUaaGGGGgCGUUu--UCUAU- -5'
28762 3' -43.6 NC_006146.1 + 38504 0.69 0.999851
Target:  5'- cUGGcccaccaUCCCCCGCAAAAGu-- -3'
miRNA:   3'- -ACCuuua---AGGGGGCGUUUUCuau -5'
28762 3' -43.6 NC_006146.1 + 39628 0.66 0.999999
Target:  5'- ------aUUCCUCGCAGAAGAUGg -3'
miRNA:   3'- accuuuaAGGGGGCGUUUUCUAU- -5'
28762 3' -43.6 NC_006146.1 + 41271 0.66 0.999997
Target:  5'- cGGAGcacgCgCCCGCGGAGGAc- -3'
miRNA:   3'- aCCUUuaa-GgGGGCGUUUUCUau -5'
28762 3' -43.6 NC_006146.1 + 42674 0.67 0.999992
Target:  5'- cGGAAGagcUCCCCgCGcCGAAAGAg- -3'
miRNA:   3'- aCCUUUa--AGGGG-GC-GUUUUCUau -5'
28762 3' -43.6 NC_006146.1 + 48252 0.66 0.999998
Target:  5'- cGGAGgg-CCCCCGCcgccguccuggcgcGAAAGAg- -3'
miRNA:   3'- aCCUUuaaGGGGGCG--------------UUUUCUau -5'
28762 3' -43.6 NC_006146.1 + 53084 0.68 0.999954
Target:  5'- gUGGAGAg---CCUGCAGAAGAUGu -3'
miRNA:   3'- -ACCUUUaaggGGGCGUUUUCUAU- -5'
28762 3' -43.6 NC_006146.1 + 54814 0.67 0.999994
Target:  5'- uUGGAGAggaCCCgGCGGAGGGc- -3'
miRNA:   3'- -ACCUUUaagGGGgCGUUUUCUau -5'
28762 3' -43.6 NC_006146.1 + 55004 0.66 0.999997
Target:  5'- cGGAAGc-CCCCCGgGcgGGAUGg -3'
miRNA:   3'- aCCUUUaaGGGGGCgUuuUCUAU- -5'
28762 3' -43.6 NC_006146.1 + 60491 0.66 0.999998
Target:  5'- cGGggGgccagcUCCCCCGaCGgcGAGGGUGc -3'
miRNA:   3'- aCCuuUa-----AGGGGGC-GU--UUUCUAU- -5'
28762 3' -43.6 NC_006146.1 + 62555 0.66 0.999998
Target:  5'- uUGGAAcucgCCCCCG-AGGAGAg- -3'
miRNA:   3'- -ACCUUuaa-GGGGGCgUUUUCUau -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.