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
2662 5' -58.3 NC_001491.2 + 87701 1.1 0.001293
Target:  5'- gCUCUAUGCGAGCGGCAGCCCUCAGGCc -3'
miRNA:   3'- -GAGAUACGCUCGCCGUCGGGAGUCCG- -5'
2662 5' -58.3 NC_001491.2 + 34979 0.75 0.30455
Target:  5'- aCUCUcgGCGcuGCuGGCGGCCCUgGGGa -3'
miRNA:   3'- -GAGAuaCGCu-CG-CCGUCGGGAgUCCg -5'
2662 5' -58.3 NC_001491.2 + 3953 0.71 0.515545
Target:  5'- gCUCUucugaGUGCGAucguaGCGGCGGCUCauggccacCAGGCg -3'
miRNA:   3'- -GAGA-----UACGCU-----CGCCGUCGGGa-------GUCCG- -5'
2662 5' -58.3 NC_001491.2 + 116589 0.71 0.535091
Target:  5'- gUgUAUGCGAugcuGCGuaGGCCCggCAGGCu -3'
miRNA:   3'- gAgAUACGCU----CGCcgUCGGGa-GUCCG- -5'
2662 5' -58.3 NC_001491.2 + 33467 0.71 0.539033
Target:  5'- -----cGCGaAGCGuacacccgggucugcGCGGCCCUCGGGCc -3'
miRNA:   3'- gagauaCGC-UCGC---------------CGUCGGGAGUCCG- -5'
2662 5' -58.3 NC_001491.2 + 12474 0.7 0.564873
Target:  5'- uCUCccgcccgGCGGGCGGCGggcGCCCgCGGGUc -3'
miRNA:   3'- -GAGaua----CGCUCGCCGU---CGGGaGUCCG- -5'
2662 5' -58.3 NC_001491.2 + 141430 0.69 0.635674
Target:  5'- gUCUAU-CGAGUGGCAcuGCCUUCcaagcgccAGGCu -3'
miRNA:   3'- gAGAUAcGCUCGCCGU--CGGGAG--------UCCG- -5'
2662 5' -58.3 NC_001491.2 + 22885 0.68 0.655989
Target:  5'- aUCUucaguaguUGCGAGUGGCAGCuuuucacauacuCCUCugGGGUa -3'
miRNA:   3'- gAGAu-------ACGCUCGCCGUCG------------GGAG--UCCG- -5'
2662 5' -58.3 NC_001491.2 + 4851 0.68 0.666122
Target:  5'- -----cGCcgGAGCGGCAGCuCUUCGGGg -3'
miRNA:   3'- gagauaCG--CUCGCCGUCG-GGAGUCCg -5'
2662 5' -58.3 NC_001491.2 + 3827 0.68 0.666122
Target:  5'- -gCUGgccGCGgcAGCGGCGGCCUgggcCGGGUa -3'
miRNA:   3'- gaGAUa--CGC--UCGCCGUCGGGa---GUCCG- -5'
2662 5' -58.3 NC_001491.2 + 35654 0.68 0.675219
Target:  5'- cCUCgccUGCGGccggcGCGGCgcuggggccguggAGCCCUCGGaGCu -3'
miRNA:   3'- -GAGau-ACGCU-----CGCCG-------------UCGGGAGUC-CG- -5'
2662 5' -58.3 NC_001491.2 + 49306 0.68 0.686299
Target:  5'- ---gGUGCGAGCucaGCGGCCCUuccCGGGa -3'
miRNA:   3'- gagaUACGCUCGc--CGUCGGGA---GUCCg -5'
2662 5' -58.3 NC_001491.2 + 60589 0.68 0.686299
Target:  5'- uUCU-UGCGAGCGGgguugAGCgCUCGGGg -3'
miRNA:   3'- gAGAuACGCUCGCCg----UCGgGAGUCCg -5'
2662 5' -58.3 NC_001491.2 + 136895 0.68 0.706299
Target:  5'- gCUCgc-GUGuGCGGCAGCCacgcgaCUCAcGGCc -3'
miRNA:   3'- -GAGauaCGCuCGCCGUCGG------GAGU-CCG- -5'
2662 5' -58.3 NC_001491.2 + 69103 0.67 0.71621
Target:  5'- ---cGUGCGuaguGCGGCGGCUgcgUAGGCg -3'
miRNA:   3'- gagaUACGCu---CGCCGUCGGga-GUCCG- -5'
2662 5' -58.3 NC_001491.2 + 58283 0.67 0.71621
Target:  5'- gUCUG---GGGUGGCAGCCUcagagCGGGCg -3'
miRNA:   3'- gAGAUacgCUCGCCGUCGGGa----GUCCG- -5'
2662 5' -58.3 NC_001491.2 + 29902 0.67 0.735812
Target:  5'- -aUUGUGCGuguguGCGGuCGGCUCUCAaaaaaaaccguGGCg -3'
miRNA:   3'- gaGAUACGCu----CGCC-GUCGGGAGU-----------CCG- -5'
2662 5' -58.3 NC_001491.2 + 79188 0.67 0.735812
Target:  5'- aUCUcgGCGuugaagguGCGcGCGGCCCgcucCAGGg -3'
miRNA:   3'- gAGAuaCGCu-------CGC-CGUCGGGa---GUCCg -5'
2662 5' -58.3 NC_001491.2 + 31842 0.67 0.745484
Target:  5'- -----gGCGaAGCGGUcGCCCUC-GGCc -3'
miRNA:   3'- gagauaCGC-UCGCCGuCGGGAGuCCG- -5'
2662 5' -58.3 NC_001491.2 + 59139 0.67 0.755058
Target:  5'- -cCUGUGCGucaAGCGGUAuCUCUcCAGGUg -3'
miRNA:   3'- gaGAUACGC---UCGCCGUcGGGA-GUCCG- -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.