miRNA display CGI


Results 1 - 20 of 27 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
31792 3' -52.4 NC_006938.1 + 6175 1.13 0.001194
Target:  5'- uUGCGAUCCCGUUCAUCAACCUGCUCCa -3'
miRNA:   3'- -ACGCUAGGGCAAGUAGUUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 50381 0.81 0.183022
Target:  5'- aGCGGaggccaccgCUCGUcgCAUCAACCUGCUCCg -3'
miRNA:   3'- aCGCUa--------GGGCAa-GUAGUUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 4211 0.76 0.375406
Target:  5'- cGcCGAgcUCCCcaUCGUCAACgUGCUCCg -3'
miRNA:   3'- aC-GCU--AGGGcaAGUAGUUGgACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 62564 0.75 0.431126
Target:  5'- gGCGGccgaggagUUCCGUcUCAUCGucccgaccagugGCCUGCUCCg -3'
miRNA:   3'- aCGCU--------AGGGCA-AGUAGU------------UGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 32906 0.72 0.566192
Target:  5'- cGCGGccagCuuGgcggggUUGUCGGCCUGCUCCu -3'
miRNA:   3'- aCGCUa---GggCa-----AGUAGUUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 6231 0.72 0.566192
Target:  5'- aGCGGUCCgCGUccUCGU-AGCCcgugGCUCCg -3'
miRNA:   3'- aCGCUAGG-GCA--AGUAgUUGGa---CGAGG- -5'
31792 3' -52.4 NC_006938.1 + 19216 0.71 0.632475
Target:  5'- gGCGAUCU---UC-UCGGCCUGCUCUc -3'
miRNA:   3'- aCGCUAGGgcaAGuAGUUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 10223 0.71 0.632475
Target:  5'- cGCGGaCaCCGUagUCGUCcACCcGCUCCg -3'
miRNA:   3'- aCGCUaG-GGCA--AGUAGuUGGaCGAGG- -5'
31792 3' -52.4 NC_006938.1 + 30877 0.7 0.665739
Target:  5'- gGCGGacggagCCCacgCGUCgGGCCUGCUCCu -3'
miRNA:   3'- aCGCUa-----GGGcaaGUAG-UUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 4388 0.7 0.676777
Target:  5'- gUGuCGAUUCaCGcgcgaCAUCGACCUGCUCa -3'
miRNA:   3'- -AC-GCUAGG-GCaa---GUAGUUGGACGAGg -5'
31792 3' -52.4 NC_006938.1 + 2772 0.7 0.686675
Target:  5'- cGgGAUCCUGcgCgGUCGACCUGCcauacaugaacggUCCa -3'
miRNA:   3'- aCgCUAGGGCaaG-UAGUUGGACG-------------AGG- -5'
31792 3' -52.4 NC_006938.1 + 24486 0.7 0.709589
Target:  5'- cGcCGAcCCUGgUCAUgAcGCCUGCUCCa -3'
miRNA:   3'- aC-GCUaGGGCaAGUAgU-UGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 15567 0.7 0.709589
Target:  5'- uUGCcg-CCCG--CGUCAGCCcGCUCCu -3'
miRNA:   3'- -ACGcuaGGGCaaGUAGUUGGaCGAGG- -5'
31792 3' -52.4 NC_006938.1 + 11992 0.69 0.720387
Target:  5'- aGCuGAUCCaGggCGUCGACgUcGCUCCg -3'
miRNA:   3'- aCG-CUAGGgCaaGUAGUUGgA-CGAGG- -5'
31792 3' -52.4 NC_006938.1 + 57201 0.69 0.741703
Target:  5'- aGCGAUgCCCug-CGUgcUGAUCUGCUCCa -3'
miRNA:   3'- aCGCUA-GGGcaaGUA--GUUGGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 18862 0.69 0.749063
Target:  5'- aUGCcaaGGUCCCGUUCGUCAAgcagauggagaaccUCUGCa-- -3'
miRNA:   3'- -ACG---CUAGGGCAAGUAGUU--------------GGACGagg -5'
31792 3' -52.4 NC_006938.1 + 33564 0.69 0.762569
Target:  5'- cGCG-UCCgGUUCGUCGgcaACCgUGCcgCCa -3'
miRNA:   3'- aCGCuAGGgCAAGUAGU---UGG-ACGa-GG- -5'
31792 3' -52.4 NC_006938.1 + 3426 0.68 0.782891
Target:  5'- gGCGAagucguagCCCGccUUCAUCuugccggugcCCUGCUCCc -3'
miRNA:   3'- aCGCUa-------GGGC--AAGUAGuu--------GGACGAGG- -5'
31792 3' -52.4 NC_006938.1 + 29897 0.68 0.782891
Target:  5'- cGCGAUCCUGUg----GAUCUGgUCCg -3'
miRNA:   3'- aCGCUAGGGCAaguagUUGGACgAGG- -5'
31792 3' -52.4 NC_006938.1 + 48366 0.68 0.802575
Target:  5'- aGCGcGUCCUGUcggagacCGUCGGCaCUGuCUCCa -3'
miRNA:   3'- aCGC-UAGGGCAa------GUAGUUG-GAC-GAGG- -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.