miRNA display CGI


Results 1 - 18 of 18 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
8212 5' -55.8 NC_001978.2 + 20935 0.66 0.628723
Target:  5'- -aCCGCCgGGUgaaGGCGAuuGAGGCGCc -3'
miRNA:   3'- gaGGCGGgUCG---UUGCUucCUCUGUGc -5'
8212 5' -55.8 NC_001978.2 + 129 0.66 0.628723
Target:  5'- -cUUGCCCAGCGuucacACGGgucguuggccuGGGGGGCGCc -3'
miRNA:   3'- gaGGCGGGUCGU-----UGCU-----------UCCUCUGUGc -5'
8212 5' -55.8 NC_001978.2 + 12137 0.66 0.617556
Target:  5'- gUCgGCuCCGGC-ACGGuccuuaucGGGGGCACGg -3'
miRNA:   3'- gAGgCG-GGUCGuUGCUu-------CCUCUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 21674 0.66 0.617556
Target:  5'- aUCCGCUguGCGGCGcuGuGAcGGCAUGa -3'
miRNA:   3'- gAGGCGGguCGUUGCuuC-CU-CUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 20118 0.66 0.606403
Target:  5'- --aCGCCCguugagGGCGACGAcaaGGGAGAgaaCAUGg -3'
miRNA:   3'- gagGCGGG------UCGUUGCU---UCCUCU---GUGC- -5'
8212 5' -55.8 NC_001978.2 + 10756 0.66 0.606403
Target:  5'- -gCCGCCCAGCuuCGAA--AGAC-CGu -3'
miRNA:   3'- gaGGCGGGUCGuuGCUUccUCUGuGC- -5'
8212 5' -55.8 NC_001978.2 + 14438 0.67 0.573115
Target:  5'- -cCCGUUCGGCuggGACGcuGAGGAcGGCGCGg -3'
miRNA:   3'- gaGGCGGGUCG---UUGC--UUCCU-CUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 24897 0.67 0.551158
Target:  5'- -cCCGCUgAGCAAgGggGGcgccGACGCu -3'
miRNA:   3'- gaGGCGGgUCGUUgCuuCCu---CUGUGc -5'
8212 5' -55.8 NC_001978.2 + 19449 0.67 0.540274
Target:  5'- -cCCGCgCGGUGACGAAuggauGGGGcGCACGa -3'
miRNA:   3'- gaGGCGgGUCGUUGCUU-----CCUC-UGUGC- -5'
8212 5' -55.8 NC_001978.2 + 26768 0.68 0.498592
Target:  5'- cCUUCGCCacguuugaggacaagGGCAACGgcGGGGGCAUu -3'
miRNA:   3'- -GAGGCGGg--------------UCGUUGCuuCCUCUGUGc -5'
8212 5' -55.8 NC_001978.2 + 19559 0.68 0.497541
Target:  5'- --aCGUCCGGCcgUGAAGGGucacGGCACGg -3'
miRNA:   3'- gagGCGGGUCGuuGCUUCCU----CUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 32361 0.68 0.487091
Target:  5'- gUCCGCCgAacggcucgacGCAugGAAGGGcGCACa -3'
miRNA:   3'- gAGGCGGgU----------CGUugCUUCCUcUGUGc -5'
8212 5' -55.8 NC_001978.2 + 32989 0.69 0.44639
Target:  5'- gCUCCGUgCcGCgAAUGGcAGGGGGCACGa -3'
miRNA:   3'- -GAGGCGgGuCG-UUGCU-UCCUCUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 37435 0.7 0.398305
Target:  5'- gCUCCGCCUAcGcCGACGA---AGACACGa -3'
miRNA:   3'- -GAGGCGGGU-C-GUUGCUuccUCUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 12623 0.7 0.380022
Target:  5'- aCUCCGCagaacguaCAG--GCGAAGGAcGGCACGa -3'
miRNA:   3'- -GAGGCGg-------GUCguUGCUUCCU-CUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 19467 0.71 0.345179
Target:  5'- gCUCCGCCuCAGCGGC-AAGGAucuuCGCGc -3'
miRNA:   3'- -GAGGCGG-GUCGUUGcUUCCUcu--GUGC- -5'
8212 5' -55.8 NC_001978.2 + 27521 0.72 0.304937
Target:  5'- aUCCGggaCCGGUAGCGgcGGcAGGCGCGu -3'
miRNA:   3'- gAGGCg--GGUCGUUGCuuCC-UCUGUGC- -5'
8212 5' -55.8 NC_001978.2 + 34428 1.1 0.000582
Target:  5'- gCUCCGCCCAGCAACGAAGGAGACACGg -3'
miRNA:   3'- -GAGGCGGGUCGUUGCUUCCUCUGUGC- -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.