miRNA display CGI


Results 1 - 20 of 41 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
1510 3' -50.6 NC_001335.1 + 8482 0.66 0.940255
Target:  5'- uUCGAUcucCUCCAuaccGGGGAGCGGugcuGUCa -3'
miRNA:   3'- -GGCUGcuuGAGGU----UCCUUCGCUu---CAG- -5'
1510 3' -50.6 NC_001335.1 + 2562 0.66 0.934932
Target:  5'- cCCGACGGcgggaacuuagaGCcCgGAGGAAGCGAc--- -3'
miRNA:   3'- -GGCUGCU------------UGaGgUUCCUUCGCUucag -5'
1510 3' -50.6 NC_001335.1 + 39936 0.66 0.934932
Target:  5'- aCGACGGcCUgCAguGGGAGGCGAu--- -3'
miRNA:   3'- gGCUGCUuGAgGU--UCCUUCGCUucag -5'
1510 3' -50.6 NC_001335.1 + 12146 0.66 0.929317
Target:  5'- gCCGACGAcCgugCCc--GAGGCGAcguGGUCg -3'
miRNA:   3'- -GGCUGCUuGa--GGuucCUUCGCU---UCAG- -5'
1510 3' -50.6 NC_001335.1 + 27885 0.66 0.929317
Target:  5'- aCGGCGAAUgggCguGGuuGAAGCGAacGGUCg -3'
miRNA:   3'- gGCUGCUUGa--GguUC--CUUCGCU--UCAG- -5'
1510 3' -50.6 NC_001335.1 + 6727 0.66 0.923411
Target:  5'- gCCGAUGAugUgaGGGGGAGaCGggG-Ca -3'
miRNA:   3'- -GGCUGCUugAggUUCCUUC-GCuuCaG- -5'
1510 3' -50.6 NC_001335.1 + 21955 0.66 0.917212
Target:  5'- gCCGAUGGcCUCUAGuGGGuuGGUGggGUa -3'
miRNA:   3'- -GGCUGCUuGAGGUU-CCU--UCGCuuCAg -5'
1510 3' -50.6 NC_001335.1 + 9857 0.66 0.917212
Target:  5'- gCCGugGGGCUC--GGGGAGCcugGGAccGUCg -3'
miRNA:   3'- -GGCugCUUGAGguUCCUUCG---CUU--CAG- -5'
1510 3' -50.6 NC_001335.1 + 7899 0.66 0.917212
Target:  5'- cCCGuCGAAC-CCGAGG--GUGAuccGGUCa -3'
miRNA:   3'- -GGCuGCUUGaGGUUCCuuCGCU---UCAG- -5'
1510 3' -50.6 NC_001335.1 + 26242 0.66 0.910722
Target:  5'- gCGgcaGCGGGCUCCAGGccccGAGGCGcGGGUUc -3'
miRNA:   3'- gGC---UGCUUGAGGUUC----CUUCGC-UUCAG- -5'
1510 3' -50.6 NC_001335.1 + 24372 0.67 0.906689
Target:  5'- gCGGCGAACguagcgCCGAcagcgcggaggucguGGAuGCGGAGUUc -3'
miRNA:   3'- gGCUGCUUGa-----GGUU---------------CCUuCGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 47179 0.67 0.903943
Target:  5'- gCCGACGcggucuGGC-CCGAacucGGGAGCGAAGcCc -3'
miRNA:   3'- -GGCUGC------UUGaGGUU----CCUUCGCUUCaG- -5'
1510 3' -50.6 NC_001335.1 + 35197 0.67 0.903943
Target:  5'- gCCGAUG--UUCCGGGGAAG-GAAGg- -3'
miRNA:   3'- -GGCUGCuuGAGGUUCCUUCgCUUCag -5'
1510 3' -50.6 NC_001335.1 + 11698 0.67 0.903943
Target:  5'- aUCGucGCGAuCUUguGGGggGCGAuGGUCu -3'
miRNA:   3'- -GGC--UGCUuGAGguUCCuuCGCU-UCAG- -5'
1510 3' -50.6 NC_001335.1 + 3082 0.67 0.901853
Target:  5'- aCCGACGuGCUcaagcagcgccucgCCAAGGcGAGCGGcgggagcugauGGUCc -3'
miRNA:   3'- -GGCUGCuUGA--------------GGUUCC-UUCGCU-----------UCAG- -5'
1510 3' -50.6 NC_001335.1 + 32238 0.67 0.892504
Target:  5'- gCCGACGAGCUggCCGAGuucGCGGgccggaacugcuaccGGUCg -3'
miRNA:   3'- -GGCUGCUUGA--GGUUCcuuCGCU---------------UCAG- -5'
1510 3' -50.6 NC_001335.1 + 40035 0.67 0.889532
Target:  5'- gUCGACGuuCUCCucGGAgacguugcgGGCGAGGcCg -3'
miRNA:   3'- -GGCUGCuuGAGGuuCCU---------UCGCUUCaG- -5'
1510 3' -50.6 NC_001335.1 + 23696 0.67 0.881908
Target:  5'- aUCGACGucaucCUCCucgGAGGAGGCGGcgggGGUa -3'
miRNA:   3'- -GGCUGCuu---GAGG---UUCCUUCGCU----UCAg -5'
1510 3' -50.6 NC_001335.1 + 7323 0.67 0.87641
Target:  5'- aCGACGAACgucgggcgguuacccUCCAucgacgcGGGGcuCGAGGUCg -3'
miRNA:   3'- gGCUGCUUG---------------AGGU-------UCCUucGCUUCAG- -5'
1510 3' -50.6 NC_001335.1 + 35478 0.67 0.874014
Target:  5'- gCCGcCGAuCUCCGAguucuuGGGAGgGAGGUg -3'
miRNA:   3'- -GGCuGCUuGAGGUU------CCUUCgCUUCAg -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.