miRNA display CGI


Results 1 - 20 of 26 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
16686 5' -44.1 NC_004156.1 + 96179 0.66 1
Target:  5'- uGCAcccagUGCACCCAGuguGUCcaaucugGUCGAGAc -3'
miRNA:   3'- -CGUua---ACGUGGGUUu--CAG-------CAGUUUUc -5'
16686 5' -44.1 NC_004156.1 + 221593 0.66 1
Target:  5'- uGCAGUUGaacuGCUCAaguguuguauaGAGUCGUugCAAAAGa -3'
miRNA:   3'- -CGUUAACg---UGGGU-----------UUCAGCA--GUUUUC- -5'
16686 5' -44.1 NC_004156.1 + 154627 0.66 1
Target:  5'- aGCAGUUGCACCUuucuGGUgG-CAGc-- -3'
miRNA:   3'- -CGUUAACGUGGGuu--UCAgCaGUUuuc -5'
16686 5' -44.1 NC_004156.1 + 92954 0.67 1
Target:  5'- cGCAGaUGC-CCC--GGUCG-CAAAGGa -3'
miRNA:   3'- -CGUUaACGuGGGuuUCAGCaGUUUUC- -5'
16686 5' -44.1 NC_004156.1 + 166340 0.67 1
Target:  5'- uGCAugGUUGCAUaaagUCAucGUCGUCAAu-- -3'
miRNA:   3'- -CGU--UAACGUG----GGUuuCAGCAGUUuuc -5'
16686 5' -44.1 NC_004156.1 + 99348 0.67 1
Target:  5'- uGCA---GCGCUCAcgAGGUCGUCAu--- -3'
miRNA:   3'- -CGUuaaCGUGGGU--UUCAGCAGUuuuc -5'
16686 5' -44.1 NC_004156.1 + 10913 0.67 1
Target:  5'- aGCAAUUGCAUuuGcaguuGUUGUCAuuGGu -3'
miRNA:   3'- -CGUUAACGUGggUuu---CAGCAGUuuUC- -5'
16686 5' -44.1 NC_004156.1 + 99809 0.67 1
Target:  5'- uGCGAUcacccuuUGaCACUaCAAAGUCGUCAucGGa -3'
miRNA:   3'- -CGUUA-------AC-GUGG-GUUUCAGCAGUuuUC- -5'
16686 5' -44.1 NC_004156.1 + 158041 0.67 1
Target:  5'- cGCGAccgucaGCACCCuuGGUCGUgAAc-- -3'
miRNA:   3'- -CGUUaa----CGUGGGuuUCAGCAgUUuuc -5'
16686 5' -44.1 NC_004156.1 + 136193 0.67 1
Target:  5'- -----gGCAgCCCGAccAGUCGUgGAGAGu -3'
miRNA:   3'- cguuaaCGU-GGGUU--UCAGCAgUUUUC- -5'
16686 5' -44.1 NC_004156.1 + 133724 0.68 0.999999
Target:  5'- cGCuAAUgucGCugCCucAGUCGUCGGAGc -3'
miRNA:   3'- -CG-UUAa--CGugGGuuUCAGCAGUUUUc -5'
16686 5' -44.1 NC_004156.1 + 84415 0.68 0.999999
Target:  5'- ----cUGCACUCAAGGcUCcUCAGAAGa -3'
miRNA:   3'- cguuaACGUGGGUUUC-AGcAGUUUUC- -5'
16686 5' -44.1 NC_004156.1 + 150546 0.68 0.999999
Target:  5'- aCGGUUGCACCagaauuagacgaucgCAGuAGUCGUCGGuGGa -3'
miRNA:   3'- cGUUAACGUGG---------------GUU-UCAGCAGUUuUC- -5'
16686 5' -44.1 NC_004156.1 + 9461 0.68 0.999998
Target:  5'- -uGAUUGCAUCCAGu-UCGUCGAc-- -3'
miRNA:   3'- cgUUAACGUGGGUUucAGCAGUUuuc -5'
16686 5' -44.1 NC_004156.1 + 173786 0.68 0.999997
Target:  5'- uGCAAUugUGCACCC-AGGUCuaggcacuuGUCAucGGa -3'
miRNA:   3'- -CGUUA--ACGUGGGuUUCAG---------CAGUuuUC- -5'
16686 5' -44.1 NC_004156.1 + 7415 0.69 0.999995
Target:  5'- -aAGUUGUugCCAgucGAGUUGUCAGu-- -3'
miRNA:   3'- cgUUAACGugGGU---UUCAGCAGUUuuc -5'
16686 5' -44.1 NC_004156.1 + 98086 0.69 0.999993
Target:  5'- -gAGUUGgACUCAGAGUUGgccUCAGAAGu -3'
miRNA:   3'- cgUUAACgUGGGUUUCAGC---AGUUUUC- -5'
16686 5' -44.1 NC_004156.1 + 968 0.69 0.99999
Target:  5'- -aAAUUGUACCCAuAGcCGUUggGAu -3'
miRNA:   3'- cgUUAACGUGGGUuUCaGCAGuuUUc -5'
16686 5' -44.1 NC_004156.1 + 35927 0.69 0.999996
Target:  5'- uGCAAUcuUGCcUCCAAAGUCGauggCAAAGu -3'
miRNA:   3'- -CGUUA--ACGuGGGUUUCAGCa---GUUUUc -5'
16686 5' -44.1 NC_004156.1 + 62646 0.7 0.999972
Target:  5'- -uGAUUGUACCgAucGGGUCGUCGAc-- -3'
miRNA:   3'- cgUUAACGUGGgU--UUCAGCAGUUuuc -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.