miRNA display CGI


Results 1 - 20 of 24 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
2639 3' -52.9 NC_001491.2 + 31313 0.66 0.973774
Target:  5'- uUCUgCCUcGGCGGAgcucgGCgCGGAAGCCu -3'
miRNA:   3'- gAGA-GGGuCCGUUUa----UG-GUCUUCGGc -5'
2639 3' -52.9 NC_001491.2 + 11703 0.66 0.973774
Target:  5'- uUCUUCCGGGaGAGUGCUGGGGuCCGc -3'
miRNA:   3'- gAGAGGGUCCgUUUAUGGUCUUcGGC- -5'
2639 3' -52.9 NC_001491.2 + 26900 0.66 0.970937
Target:  5'- gUgUCCCAGGCAgcaccAGUACgcgCAGAagagcaugcGGCCGc -3'
miRNA:   3'- gAgAGGGUCCGU-----UUAUG---GUCU---------UCGGC- -5'
2639 3' -52.9 NC_001491.2 + 115716 0.66 0.970937
Target:  5'- gUCUCCCAGGUgu-UACUGGcgugcucGGCCa -3'
miRNA:   3'- gAGAGGGUCCGuuuAUGGUCu------UCGGc -5'
2639 3' -52.9 NC_001491.2 + 4864 0.66 0.970937
Target:  5'- gCUCUUCgGGGUGGcgGCCccAGcGGCCGg -3'
miRNA:   3'- -GAGAGGgUCCGUUuaUGG--UCuUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 6106 0.66 0.967885
Target:  5'- gCUCUcCCCGGGagaaGAAgcagAUC-GAAGCCGg -3'
miRNA:   3'- -GAGA-GGGUCCg---UUUa---UGGuCUUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 84765 0.66 0.967885
Target:  5'- ---cCCCGGGC-AGUGCCAaGGucguAGCCGc -3'
miRNA:   3'- gagaGGGUCCGuUUAUGGU-CU----UCGGC- -5'
2639 3' -52.9 NC_001491.2 + 142208 0.66 0.964613
Target:  5'- -cCUCCU-GGCAGG-GCCGGAAGCa- -3'
miRNA:   3'- gaGAGGGuCCGUUUaUGGUCUUCGgc -5'
2639 3' -52.9 NC_001491.2 + 86114 0.66 0.964613
Target:  5'- -gCUaCCAGGCcggcgauUACCAGcAGGCCGa -3'
miRNA:   3'- gaGAgGGUCCGuuu----AUGGUC-UUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 3899 0.66 0.963588
Target:  5'- gUCUCUCGGGUAGgccAUguccgcguaggcgcGCCGGAGGCUc -3'
miRNA:   3'- gAGAGGGUCCGUU---UA--------------UGGUCUUCGGc -5'
2639 3' -52.9 NC_001491.2 + 71190 0.67 0.949205
Target:  5'- -cUUCCUgcguGGcGCGAAUACCGGucgguGGCCGg -3'
miRNA:   3'- gaGAGGG----UC-CGUUUAUGGUCu----UCGGC- -5'
2639 3' -52.9 NC_001491.2 + 42159 0.68 0.935091
Target:  5'- gUCUCCCcGGCGccaGGUGagaCAGGAGCUc -3'
miRNA:   3'- gAGAGGGuCCGU---UUAUg--GUCUUCGGc -5'
2639 3' -52.9 NC_001491.2 + 37261 0.68 0.924982
Target:  5'- uCUCUCUCGGGCGcGggcccgugacccuugACCAGAuauGGCCc -3'
miRNA:   3'- -GAGAGGGUCCGUuUa--------------UGGUCU---UCGGc -5'
2639 3' -52.9 NC_001491.2 + 137842 0.69 0.900066
Target:  5'- gUgUCCggagCAGGCugcAUGCCAGAAGUCGc -3'
miRNA:   3'- gAgAGG----GUCCGuu-UAUGGUCUUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 32746 0.69 0.900066
Target:  5'- aCUCaUCCCAGGC---UACCGGGgcGGCgGc -3'
miRNA:   3'- -GAG-AGGGUCCGuuuAUGGUCU--UCGgC- -5'
2639 3' -52.9 NC_001491.2 + 84459 0.69 0.886404
Target:  5'- gCUCaccgcgCCCAGGCGA--GCgCAG-AGCCGg -3'
miRNA:   3'- -GAGa-----GGGUCCGUUuaUG-GUCuUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 32688 0.69 0.879214
Target:  5'- ---aCCCAGGCAccgGCCgaGGAGGCCc -3'
miRNA:   3'- gagaGGGUCCGUuuaUGG--UCUUCGGc -5'
2639 3' -52.9 NC_001491.2 + 49270 0.72 0.737398
Target:  5'- gUCUCCCAGGCGGcgGCagaCGGGAGUa- -3'
miRNA:   3'- gAGAGGGUCCGUUuaUG---GUCUUCGgc -5'
2639 3' -52.9 NC_001491.2 + 32809 0.72 0.727301
Target:  5'- ---cCCCGGGCGucUACCAGcgcGAGCCGc -3'
miRNA:   3'- gagaGGGUCCGUuuAUGGUC---UUCGGC- -5'
2639 3' -52.9 NC_001491.2 + 4787 0.72 0.727301
Target:  5'- -cCUCCCGGGCG---GCUGGGAGCgGg -3'
miRNA:   3'- gaGAGGGUCCGUuuaUGGUCUUCGgC- -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.