miRNA display CGI


Results 1 - 20 of 34 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
1538 3' -55.9 NC_001347.2 + 229157 1.1 0.00488
Target:  5'- gCCGCAAACUGUCCCCGUCCCCAACGUa -3'
miRNA:   3'- -GGCGUUUGACAGGGGCAGGGGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 229199 0.76 0.539423
Target:  5'- gCGCGAACaG-CCCCGgCCCCAGCGc -3'
miRNA:   3'- gGCGUUUGaCaGGGGCaGGGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 37538 0.72 0.734231
Target:  5'- -gGUcgGCUGUCCCCGaggaCCCAAUGUg -3'
miRNA:   3'- ggCGuuUGACAGGGGCag--GGGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 38443 0.72 0.762141
Target:  5'- cCCGCc-GCcGUCCCCGUCgCCGGCc- -3'
miRNA:   3'- -GGCGuuUGaCAGGGGCAGgGGUUGca -5'
1538 3' -55.9 NC_001347.2 + 152169 0.72 0.762141
Target:  5'- aCGU--GCUGUCgCCCGUCuuuCCCGGCGg -3'
miRNA:   3'- gGCGuuUGACAG-GGGCAG---GGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 41132 0.71 0.789089
Target:  5'- gCGCAGcACUcGgcuaCCCCGUCCCCcGCGc -3'
miRNA:   3'- gGCGUU-UGA-Ca---GGGGCAGGGGuUGCa -5'
1538 3' -55.9 NC_001347.2 + 192131 0.7 0.831278
Target:  5'- aCCGCcgucguuGCcgGUCCCCGUuucCUCCGGCGUc -3'
miRNA:   3'- -GGCGuu-----UGa-CAGGGGCA---GGGGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 19388 0.7 0.842376
Target:  5'- cCCGCGGACacacgcugaaacagGUCCCCaUCCCCGAa-- -3'
miRNA:   3'- -GGCGUUUGa-------------CAGGGGcAGGGGUUgca -5'
1538 3' -55.9 NC_001347.2 + 174127 0.7 0.847027
Target:  5'- cCCaGCAGACcagCCaCCGUCCCuCAGCGa -3'
miRNA:   3'- -GG-CGUUUGacaGG-GGCAGGG-GUUGCa -5'
1538 3' -55.9 NC_001347.2 + 127791 0.69 0.862053
Target:  5'- cCCGCcuGCaccGUCgCCGUacaCCCCAGCGUu -3'
miRNA:   3'- -GGCGuuUGa--CAGgGGCA---GGGGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 34681 0.69 0.862053
Target:  5'- cUCGCGGACUcGgugCCCCGgCCCCugGAUGUg -3'
miRNA:   3'- -GGCGUUUGA-Ca--GGGGCaGGGG--UUGCA- -5'
1538 3' -55.9 NC_001347.2 + 225492 0.69 0.872115
Target:  5'- aUCGCu-GCUG-CCCCGgcguucuccagaagCCCCGGCGg -3'
miRNA:   3'- -GGCGuuUGACaGGGGCa-------------GGGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 160655 0.69 0.876309
Target:  5'- aCCGCGGcCcgGUCUCUGUUCCCcACGUc -3'
miRNA:   3'- -GGCGUUuGa-CAGGGGCAGGGGuUGCA- -5'
1538 3' -55.9 NC_001347.2 + 113877 0.69 0.883136
Target:  5'- gCGCGAccgacaacgaagGCUGUCCCUGgCCCUGcGCGUg -3'
miRNA:   3'- gGCGUU------------UGACAGGGGCaGGGGU-UGCA- -5'
1538 3' -55.9 NC_001347.2 + 105489 0.69 0.889756
Target:  5'- aCGCAcgGACUGcUCUacaCCGUCCUCAACa- -3'
miRNA:   3'- gGCGU--UUGAC-AGG---GGCAGGGGUUGca -5'
1538 3' -55.9 NC_001347.2 + 135551 0.69 0.896166
Target:  5'- gCCGuCGAGCcggggcGUCgCCCGUCCCCAccacCGUc -3'
miRNA:   3'- -GGC-GUUUGa-----CAG-GGGCAGGGGUu---GCA- -5'
1538 3' -55.9 NC_001347.2 + 118860 0.68 0.908341
Target:  5'- uCCGCAGAgcGuUCCCCGUCgaaUCAGCGUc -3'
miRNA:   3'- -GGCGUUUgaC-AGGGGCAGg--GGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 229221 0.68 0.908341
Target:  5'- -nGCAAcccCcGUCCCCGgCCCCAACa- -3'
miRNA:   3'- ggCGUUu--GaCAGGGGCaGGGGUUGca -5'
1538 3' -55.9 NC_001347.2 + 158550 0.68 0.914102
Target:  5'- aCGCGacguGACgGUCCCgCGUCUCCuGCGc -3'
miRNA:   3'- gGCGU----UUGaCAGGG-GCAGGGGuUGCa -5'
1538 3' -55.9 NC_001347.2 + 183900 0.68 0.919643
Target:  5'- -aGCAGGCgccgGUgCUCGUCCCCAAa-- -3'
miRNA:   3'- ggCGUUUGa---CAgGGGCAGGGGUUgca -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.