miRNA display CGI


Results 1 - 20 of 26 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
4373 5' -50.7 NC_001720.1 + 14108 0.76 0.369493
Target:  5'- gGAgCuCGGGGAGGCGGGCGcAAAUCUc -3'
miRNA:   3'- aCUgGcGUUUUUCCGCCCGC-UUUAGG- -5'
4373 5' -50.7 NC_001720.1 + 26692 1.13 0.001225
Target:  5'- uUGACCGCAAAAAGGCGGGCGAAAUCCu -3'
miRNA:   3'- -ACUGGCGUUUUUCCGCCCGCUUUAGG- -5'
4373 5' -50.7 NC_001720.1 + 11899 0.67 0.831016
Target:  5'- --cCCGagGAGAAGGUGcGGCGGcggcAAUCCg -3'
miRNA:   3'- acuGGCg-UUUUUCCGC-CCGCU----UUAGG- -5'
4373 5' -50.7 NC_001720.1 + 1042 0.67 0.825318
Target:  5'- uUGGCCGCcAAAuuuuucauugacgucGGaGCGGGUGuuaucGAUCCc -3'
miRNA:   3'- -ACUGGCGuUUU---------------UC-CGCCCGCu----UUAGG- -5'
4373 5' -50.7 NC_001720.1 + 11171 0.67 0.821475
Target:  5'- cGGCUGCAGAGGGuGauGGCGcc-UCCu -3'
miRNA:   3'- aCUGGCGUUUUUC-CgcCCGCuuuAGG- -5'
4373 5' -50.7 NC_001720.1 + 9925 0.68 0.801748
Target:  5'- aUGACgGUGAccuGGGCGGGCuuaAAGUCg -3'
miRNA:   3'- -ACUGgCGUUuu-UCCGCCCGc--UUUAGg -5'
4373 5' -50.7 NC_001720.1 + 1233 0.68 0.801748
Target:  5'- aGACCGCG---GGGCgucGGGUuucGGGUCCa -3'
miRNA:   3'- aCUGGCGUuuuUCCG---CCCGc--UUUAGG- -5'
4373 5' -50.7 NC_001720.1 + 20733 0.69 0.738286
Target:  5'- gGACCGCAca---GCaGGGCGAAG-CCu -3'
miRNA:   3'- aCUGGCGUuuuucCG-CCCGCUUUaGG- -5'
4373 5' -50.7 NC_001720.1 + 32609 0.7 0.659094
Target:  5'- aGACCGgGAAugGAGGgaaGGaacuGCGAGAUCCu -3'
miRNA:   3'- aCUGGCgUUU--UUCCg--CC----CGCUUUAGG- -5'
4373 5' -50.7 NC_001720.1 + 27554 0.73 0.500204
Target:  5'- cGGCCGUugguuAGAGGGCGGaGCaGAAGaCCg -3'
miRNA:   3'- aCUGGCGu----UUUUCCGCC-CG-CUUUaGG- -5'
4373 5' -50.7 NC_001720.1 + 19407 0.73 0.488304
Target:  5'- cUGcCCGaCGGGcacGGGGCGGGCGAAgacaacgGUCCc -3'
miRNA:   3'- -ACuGGC-GUUU---UUCCGCCCGCUU-------UAGG- -5'
4373 5' -50.7 NC_001720.1 + 19410 0.66 0.898257
Target:  5'- cGGCCGgGGccacGAGGGCGucccgcuCGAGAUCCu -3'
miRNA:   3'- aCUGGCgUU----UUUCCGCcc-----GCUUUAGG- -5'
4373 5' -50.7 NC_001720.1 + 21642 0.66 0.890814
Target:  5'- --cCCGCAGGcGGcGuCGGGCGGAGcaggCCg -3'
miRNA:   3'- acuGGCGUUUuUC-C-GCCCGCUUUa---GG- -5'
4373 5' -50.7 NC_001720.1 + 10865 0.66 0.890814
Target:  5'- cGACgCGCGAGAGucGCuGGUGAAcGUCCg -3'
miRNA:   3'- aCUG-GCGUUUUUc-CGcCCGCUU-UAGG- -5'
4373 5' -50.7 NC_001720.1 + 11806 0.66 0.883082
Target:  5'- gUG-UCGCGcuuggGGGAGGCGGGUGGcagCCc -3'
miRNA:   3'- -ACuGGCGU-----UUUUCCGCCCGCUuuaGG- -5'
4373 5' -50.7 NC_001720.1 + 4944 0.66 0.875068
Target:  5'- uUGA-UGCu--GGGGUGGGCGcgGUCUa -3'
miRNA:   3'- -ACUgGCGuuuUUCCGCCCGCuuUAGG- -5'
4373 5' -50.7 NC_001720.1 + 14356 0.67 0.845799
Target:  5'- gUGACUGUAAGAGGGgacugauaguucaGGGUGAcg-CCg -3'
miRNA:   3'- -ACUGGCGUUUUUCCg------------CCCGCUuuaGG- -5'
4373 5' -50.7 NC_001720.1 + 42740 0.67 0.840327
Target:  5'- cGACCGUAAc-AGcCGGGCGGAAa-- -3'
miRNA:   3'- aCUGGCGUUuuUCcGCCCGCUUUagg -5'
4373 5' -50.7 NC_001720.1 + 32207 0.67 0.840327
Target:  5'- gUGGCuUGCAAGAAGGCGuccucauGCGAAcggCCu -3'
miRNA:   3'- -ACUG-GCGUUUUUCCGCc------CGCUUua-GG- -5'
4373 5' -50.7 NC_001720.1 + 15347 0.67 0.831016
Target:  5'- cUGGCCuuGCGuguuGAGGGUgaGGGUGcuGUCCg -3'
miRNA:   3'- -ACUGG--CGUu---UUUCCG--CCCGCuuUAGG- -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.