miRNA display CGI


Results 1 - 19 of 19 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
12430 3' -57.5 NC_003324.1 + 11941 0.66 0.604812
Target:  5'- gGGC--UGCUGuCAAUGCCccgguuGGGCGcGGCa -3'
miRNA:   3'- gCCGaaACGAC-GUUGUGG------CCCGC-CUG- -5'
12430 3' -57.5 NC_003324.1 + 39799 0.66 0.593947
Target:  5'- uGGUg--GCUGCAGaACCGcaGGcCGGGCa -3'
miRNA:   3'- gCCGaaaCGACGUUgUGGC--CC-GCCUG- -5'
12430 3' -57.5 NC_003324.1 + 36268 0.66 0.561574
Target:  5'- -uGCccUGCUGCuugacgaugauGGCAUCgGGGCGGGCg -3'
miRNA:   3'- gcCGaaACGACG-----------UUGUGG-CCCGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 56648 0.67 0.508823
Target:  5'- gCGGCguuauggGCgGCGGCAUgGGucGCGGGCa -3'
miRNA:   3'- -GCCGaaa----CGaCGUUGUGgCC--CGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 48723 0.67 0.507788
Target:  5'- uGGCUcaugccgaugaugUUGCgGCGGaGCCGGauGCGGGCg -3'
miRNA:   3'- gCCGA-------------AACGaCGUUgUGGCC--CGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 53807 0.68 0.478185
Target:  5'- uGGUgggGCUGCAccaaggucuCGCCGGGCuGcGACa -3'
miRNA:   3'- gCCGaaaCGACGUu--------GUGGCCCG-C-CUG- -5'
12430 3' -57.5 NC_003324.1 + 32801 0.68 0.478185
Target:  5'- uGGCUcuacgaGCUGUucGGCGCauGGCGGGCa -3'
miRNA:   3'- gCCGAaa----CGACG--UUGUGgcCCGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 28688 0.68 0.458273
Target:  5'- gGGCcacGaggGCGACAgCGGGCGGAa -3'
miRNA:   3'- gCCGaaaCga-CGUUGUgGCCCGCCUg -5'
12430 3' -57.5 NC_003324.1 + 29246 0.68 0.438812
Target:  5'- gCGGCUguucggGcCUGCAuCGCCGGGCucGCg -3'
miRNA:   3'- -GCCGAaa----C-GACGUuGUGGCCCGccUG- -5'
12430 3' -57.5 NC_003324.1 + 29034 0.69 0.419832
Target:  5'- aCGaGCgcUUGCUcaaGCAGCGCCaGGCGGcACg -3'
miRNA:   3'- -GC-CGa-AACGA---CGUUGUGGcCCGCC-UG- -5'
12430 3' -57.5 NC_003324.1 + 44632 0.69 0.401357
Target:  5'- uGGCUgacUGCccaUGCGAUGCCGGGUGucCa -3'
miRNA:   3'- gCCGAa--ACG---ACGUUGUGGCCCGCcuG- -5'
12430 3' -57.5 NC_003324.1 + 50793 0.69 0.391419
Target:  5'- aCGGCaaUGCUGCcACACCGGaGCagugccaGGAg -3'
miRNA:   3'- -GCCGaaACGACGuUGUGGCC-CG-------CCUg -5'
12430 3' -57.5 NC_003324.1 + 21093 0.7 0.374636
Target:  5'- gCGGCgcgUGCUGCGucggcuuccACGUCGGGCuGGCg -3'
miRNA:   3'- -GCCGaa-ACGACGU---------UGUGGCCCGcCUG- -5'
12430 3' -57.5 NC_003324.1 + 40419 0.71 0.317122
Target:  5'- cCGGCaagacUGCUGCAGCGCCgaaGGGUgcaacuaagcaGGGCa -3'
miRNA:   3'- -GCCGaa---ACGACGUUGUGG---CCCG-----------CCUG- -5'
12430 3' -57.5 NC_003324.1 + 54576 0.71 0.302703
Target:  5'- aGGCUUcgcggaUGCcccucacccauuccgGguGCAUCGGGCGGGCa -3'
miRNA:   3'- gCCGAA------ACGa--------------CguUGUGGCCCGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 16161 0.72 0.280272
Target:  5'- aGGCaucGCUG--GCACCGaGGCGGGCa -3'
miRNA:   3'- gCCGaaaCGACguUGUGGC-CCGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 39651 0.72 0.266514
Target:  5'- aGGCUggUGCUGacguGGCGCCaGGCgGGACg -3'
miRNA:   3'- gCCGAa-ACGACg---UUGUGGcCCG-CCUG- -5'
12430 3' -57.5 NC_003324.1 + 9663 0.73 0.216901
Target:  5'- aCGcGCUggGCgGCGugGgGCCGGGCGGAUa -3'
miRNA:   3'- -GC-CGAaaCGaCGU--UgUGGCCCGCCUG- -5'
12430 3' -57.5 NC_003324.1 + 12020 1.1 0.000469
Target:  5'- cCGGCUUUGCUGCAACACCGGGCGGACg -3'
miRNA:   3'- -GCCGAAACGACGUUGUGGCCCGCCUG- -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.