miRNA display CGI


Results 1 - 20 of 35 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
1389 3' -56.6 NC_001335.1 + 49129 0.66 0.645162
Target:  5'- uGAGCCGUaCAACCacUCGGuCUACAa-- -3'
miRNA:   3'- cCUCGGCAcGUUGG--AGCC-GGUGUagu -5'
1389 3' -56.6 NC_001335.1 + 13349 0.66 0.645162
Target:  5'- aGGAGCaCG-GCAuCCUCGGggcccagucCCAgAUCGa -3'
miRNA:   3'- -CCUCG-GCaCGUuGGAGCC---------GGUgUAGU- -5'
1389 3' -56.6 NC_001335.1 + 2450 0.66 0.645162
Target:  5'- aGGGCC--GCAACCgaugUCGaCCACAUCAa -3'
miRNA:   3'- cCUCGGcaCGUUGG----AGCcGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 47640 0.66 0.634193
Target:  5'- uGGAGCCG---AGCCUCGGUCucgGCGUa- -3'
miRNA:   3'- -CCUCGGCacgUUGGAGCCGG---UGUAgu -5'
1389 3' -56.6 NC_001335.1 + 22293 0.66 0.634193
Target:  5'- gGGAucucGCCGau-GACCUCGGCCGgGUUg -3'
miRNA:   3'- -CCU----CGGCacgUUGGAGCCGGUgUAGu -5'
1389 3' -56.6 NC_001335.1 + 50762 0.66 0.634193
Target:  5'- gGGGGCgGcGC-ACCUUGGgCGCGUUg -3'
miRNA:   3'- -CCUCGgCaCGuUGGAGCCgGUGUAGu -5'
1389 3' -56.6 NC_001335.1 + 27419 0.66 0.623221
Target:  5'- --cGCCGgcuacacgagGCAAUCgaugaGGCCACGUCGa -3'
miRNA:   3'- ccuCGGCa---------CGUUGGag---CCGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 3158 0.66 0.623221
Target:  5'- cGAGgCGcUGCuugagcACgUCGGUCACGUCAa -3'
miRNA:   3'- cCUCgGC-ACGu-----UGgAGCCGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 19422 0.66 0.623221
Target:  5'- aGAGCUGcGCGauggcgacuuccGCCUgcgCGGCCugGUCGc -3'
miRNA:   3'- cCUCGGCaCGU------------UGGA---GCCGGugUAGU- -5'
1389 3' -56.6 NC_001335.1 + 5052 0.66 0.600218
Target:  5'- cGGuuGCCGUGgGacucccagucgacGCCUCGGUCggACAUCu -3'
miRNA:   3'- -CCu-CGGCACgU-------------UGGAGCCGG--UGUAGu -5'
1389 3' -56.6 NC_001335.1 + 7846 0.66 0.59694
Target:  5'- --uGCCGUGCuuauccagguaCUUGGCCAgGUCGa -3'
miRNA:   3'- ccuCGGCACGuug--------GAGCCGGUgUAGU- -5'
1389 3' -56.6 NC_001335.1 + 26596 0.67 0.547143
Target:  5'- cGAGCCGaaCGGCCUUGaGCCGgcCGUCGg -3'
miRNA:   3'- cCUCGGCacGUUGGAGC-CGGU--GUAGU- -5'
1389 3' -56.6 NC_001335.1 + 32703 0.67 0.547143
Target:  5'- -cGGCgGUGuUGACCUUGGCCagcACGUCGg -3'
miRNA:   3'- ccUCGgCAC-GUUGGAGCCGG---UGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 34377 0.67 0.536478
Target:  5'- -uGGCCccuUGCGGCCggaugCGGCuCACGUCGu -3'
miRNA:   3'- ccUCGGc--ACGUUGGa----GCCG-GUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 10170 0.67 0.536478
Target:  5'- --cGCCGagUGCGACCUCuaaguuggcucuGGCCGCAguUCGc -3'
miRNA:   3'- ccuCGGC--ACGUUGGAG------------CCGGUGU--AGU- -5'
1389 3' -56.6 NC_001335.1 + 7878 0.67 0.536478
Target:  5'- cGGcuGCCGUGuCAGCgaCGGCCugcuguuCGUCAu -3'
miRNA:   3'- -CCu-CGGCAC-GUUGgaGCCGGu------GUAGU- -5'
1389 3' -56.6 NC_001335.1 + 26610 0.68 0.525886
Target:  5'- aGGAGCUGaUGCGACCcaUCGGCaaguagGCuGUCGg -3'
miRNA:   3'- -CCUCGGC-ACGUUGG--AGCCGg-----UG-UAGU- -5'
1389 3' -56.6 NC_001335.1 + 4208 0.68 0.515373
Target:  5'- gGGuGCgGUGUuACCUCGGCU--GUCGg -3'
miRNA:   3'- -CCuCGgCACGuUGGAGCCGGugUAGU- -5'
1389 3' -56.6 NC_001335.1 + 4698 0.68 0.504947
Target:  5'- gGGAGaCCGUcGCGAgCgcgGGCCAUGUCGu -3'
miRNA:   3'- -CCUC-GGCA-CGUUgGag-CCGGUGUAGU- -5'
1389 3' -56.6 NC_001335.1 + 3083 0.68 0.504947
Target:  5'- cGAGUCGgacGCGGCgUCGGUCACcuucgGUCAg -3'
miRNA:   3'- cCUCGGCa--CGUUGgAGCCGGUG-----UAGU- -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.