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
28402 5' -59.5 NC_005946.1 + 60165 0.66 0.659677
Target:  5'- aCCCagaUGUAccucucggagccGGUCAGGGCuGCCguggugguggggUCCACc -3'
miRNA:   3'- -GGG---ACAU------------CCGGUCCCGuCGGa-----------AGGUG- -5'
28402 5' -59.5 NC_005946.1 + 28670 0.66 0.641103
Target:  5'- aCCagGUaccAGGCCAGGGgGGCCgucagCCu- -3'
miRNA:   3'- gGGa-CA---UCCGGUCCCgUCGGaa---GGug -5'
28402 5' -59.5 NC_005946.1 + 24355 0.66 0.63077
Target:  5'- gCCUGUGGaaGCC-GGGCugggaGGCCcucuUUCCACc -3'
miRNA:   3'- gGGACAUC--CGGuCCCG-----UCGG----AAGGUG- -5'
28402 5' -59.5 NC_005946.1 + 42359 0.66 0.63077
Target:  5'- aCCCUuUGGGCCGucGGGCcccgcGUCgUCCGCu -3'
miRNA:   3'- -GGGAcAUCCGGU--CCCGu----CGGaAGGUG- -5'
28402 5' -59.5 NC_005946.1 + 2655 0.66 0.62044
Target:  5'- cCCCUGcUAcGCCgGGGGCugcagcGCCUUCaCACc -3'
miRNA:   3'- -GGGAC-AUcCGG-UCCCGu-----CGGAAG-GUG- -5'
28402 5' -59.5 NC_005946.1 + 42188 0.66 0.62044
Target:  5'- aCCCUG-GGGCCAcucGGGCcacucgGGCCcacguccCCACg -3'
miRNA:   3'- -GGGACaUCCGGU---CCCG------UCGGaa-----GGUG- -5'
28402 5' -59.5 NC_005946.1 + 89749 0.67 0.588505
Target:  5'- aCCUGgggAGuGUC-GGGCAGCCacccggcggcccuUUCCACc -3'
miRNA:   3'- gGGACa--UC-CGGuCCCGUCGG-------------AAGGUG- -5'
28402 5' -59.5 NC_005946.1 + 94431 0.67 0.579282
Target:  5'- gCCCU---GGUgAGGGCccuGCCUUCCGg -3'
miRNA:   3'- -GGGAcauCCGgUCCCGu--CGGAAGGUg -5'
28402 5' -59.5 NC_005946.1 + 34574 0.67 0.569071
Target:  5'- cCCCUGaagacGGCCAGGGCcuuCCUgucccUCCAg -3'
miRNA:   3'- -GGGACau---CCGGUCCCGuc-GGA-----AGGUg -5'
28402 5' -59.5 NC_005946.1 + 61991 0.67 0.567034
Target:  5'- gCCCUGgagcuguggaggAGGCUGGGGCuGCCcgCCc- -3'
miRNA:   3'- -GGGACa-----------UCCGGUCCCGuCGGaaGGug -5'
28402 5' -59.5 NC_005946.1 + 23721 0.67 0.558905
Target:  5'- aCCCUGUccAGGCUaaAGucuGCGGCC-UCCAUg -3'
miRNA:   3'- -GGGACA--UCCGG--UCc--CGUCGGaAGGUG- -5'
28402 5' -59.5 NC_005946.1 + 60495 0.67 0.558905
Target:  5'- cCCCUGUGGGCCGGaaaacCGGUCc-CCACc -3'
miRNA:   3'- -GGGACAUCCGGUCcc---GUCGGaaGGUG- -5'
28402 5' -59.5 NC_005946.1 + 48038 0.69 0.479921
Target:  5'- uUCUGggAGGCCuggguGGGCGGCCU-CCu- -3'
miRNA:   3'- gGGACa-UCCGGu----CCCGUCGGAaGGug -5'
28402 5' -59.5 NC_005946.1 + 26973 0.7 0.433407
Target:  5'- gCCUGUGGGCCuugguGGcGuCAGUgUUCCAg -3'
miRNA:   3'- gGGACAUCCGGu----CC-C-GUCGgAAGGUg -5'
28402 5' -59.5 NC_005946.1 + 28758 0.7 0.415547
Target:  5'- cUCCUucugGUAGGCCAuGGUGGCCU-CCAUc -3'
miRNA:   3'- -GGGA----CAUCCGGUcCCGUCGGAaGGUG- -5'
28402 5' -59.5 NC_005946.1 + 57897 0.71 0.372937
Target:  5'- gCCCUGUuGGCCGGGGgGGagagCgcCCACa -3'
miRNA:   3'- -GGGACAuCCGGUCCCgUCg---GaaGGUG- -5'
28402 5' -59.5 NC_005946.1 + 98202 0.73 0.276706
Target:  5'- aCCaUGUGGaCUGGGGCGGCCUgcaccugcUCCACa -3'
miRNA:   3'- gGG-ACAUCcGGUCCCGUCGGA--------AGGUG- -5'
28402 5' -59.5 NC_005946.1 + 79070 0.74 0.222429
Target:  5'- aCCCUGgcGGCCucGGUcauGGCCuUUCCGCa -3'
miRNA:   3'- -GGGACauCCGGucCCG---UCGG-AAGGUG- -5'
28402 5' -59.5 NC_005946.1 + 62788 1.11 0.000551
Target:  5'- gCCCUGUAGGCCAGGGCAGCCUUCCACg -3'
miRNA:   3'- -GGGACAUCCGGUCCCGUCGGAAGGUG- -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.