miRNA display CGI


Results 1 - 20 of 44 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
20400 5' -58.1 NC_004687.1 + 55610 0.66 0.840711
Target:  5'- --gGGCGuAguCCUGGUuuggcguaUCGGUCGGUGa -3'
miRNA:   3'- cugCCGC-UguGGACCG--------AGCCAGCUAU- -5'
20400 5' -58.1 NC_004687.1 + 89388 0.66 0.833398
Target:  5'- gGACGGgGuCACCggucgcuggcugcgcGGCUCGGcgCGGUGc -3'
miRNA:   3'- -CUGCCgCuGUGGa--------------CCGAGCCa-GCUAU- -5'
20400 5' -58.1 NC_004687.1 + 137802 0.66 0.832576
Target:  5'- uGGCGGCGugGCCgcgcucaacaGCUCcGGUCaGGUGg -3'
miRNA:   3'- -CUGCCGCugUGGac--------CGAG-CCAG-CUAU- -5'
20400 5' -58.1 NC_004687.1 + 8998 0.66 0.832576
Target:  5'- cGACGGUGGCG-CUGGCggCGGU-GAc- -3'
miRNA:   3'- -CUGCCGCUGUgGACCGa-GCCAgCUau -5'
20400 5' -58.1 NC_004687.1 + 51184 0.66 0.832576
Target:  5'- cGGCGGCauccaGCGCCUGGgC-CaGUCGAUGa -3'
miRNA:   3'- -CUGCCGc----UGUGGACC-GaGcCAGCUAU- -5'
20400 5' -58.1 NC_004687.1 + 107944 0.66 0.832576
Target:  5'- cGACGagaGCGcCACC-GGCuUCGGUCGGc- -3'
miRNA:   3'- -CUGC---CGCuGUGGaCCG-AGCCAGCUau -5'
20400 5' -58.1 NC_004687.1 + 117723 0.66 0.832576
Target:  5'- -gUGGuCGGCcCCUGGCgcaggUGGUCGAc- -3'
miRNA:   3'- cuGCC-GCUGuGGACCGa----GCCAGCUau -5'
20400 5' -58.1 NC_004687.1 + 97339 0.66 0.824264
Target:  5'- -cCGGCGGgACCUGGgUC-GUCGGc- -3'
miRNA:   3'- cuGCCGCUgUGGACCgAGcCAGCUau -5'
20400 5' -58.1 NC_004687.1 + 92691 0.66 0.824264
Target:  5'- uGCGGCGucgaugcCACCUGGCccuuaCGGUCuGAa- -3'
miRNA:   3'- cUGCCGCu------GUGGACCGa----GCCAG-CUau -5'
20400 5' -58.1 NC_004687.1 + 20393 0.66 0.807135
Target:  5'- cACGGCGGCACCUGGCacaucuaccUGGacuaccgcaaUCGGUc -3'
miRNA:   3'- cUGCCGCUGUGGACCGa--------GCC----------AGCUAu -5'
20400 5' -58.1 NC_004687.1 + 64390 0.66 0.807135
Target:  5'- -uCGGCGACAgCCUGGUcgauggCGGUgCGGg- -3'
miRNA:   3'- cuGCCGCUGU-GGACCGa-----GCCA-GCUau -5'
20400 5' -58.1 NC_004687.1 + 143712 0.66 0.798334
Target:  5'- aGACGGCaaucagGACGCCUGGg-CGG-CGAc- -3'
miRNA:   3'- -CUGCCG------CUGUGGACCgaGCCaGCUau -5'
20400 5' -58.1 NC_004687.1 + 127741 0.66 0.798334
Target:  5'- uGACGGCGAgGCCgacGGCaaGGcCGGa- -3'
miRNA:   3'- -CUGCCGCUgUGGa--CCGagCCaGCUau -5'
20400 5' -58.1 NC_004687.1 + 43049 0.67 0.789387
Target:  5'- -cCGGCgGACACCUGGCgUGGcUCGc-- -3'
miRNA:   3'- cuGCCG-CUGUGGACCGaGCC-AGCuau -5'
20400 5' -58.1 NC_004687.1 + 57193 0.67 0.789387
Target:  5'- gGACaGCGugGCCaaggUGGCUCGGgccuaCGAc- -3'
miRNA:   3'- -CUGcCGCugUGG----ACCGAGCCa----GCUau -5'
20400 5' -58.1 NC_004687.1 + 106383 0.67 0.789387
Target:  5'- aGAcCGGCGAgcacaucuuCACCUGGC-CGGaCGGUu -3'
miRNA:   3'- -CU-GCCGCU---------GUGGACCGaGCCaGCUAu -5'
20400 5' -58.1 NC_004687.1 + 110426 0.67 0.780301
Target:  5'- uGAUGGUGuCGuugaaCUGGCUCaGGUCGAa- -3'
miRNA:   3'- -CUGCCGCuGUg----GACCGAG-CCAGCUau -5'
20400 5' -58.1 NC_004687.1 + 112208 0.67 0.771086
Target:  5'- aACGGUGACGCCaaccccucGGCgUCGGUCa--- -3'
miRNA:   3'- cUGCCGCUGUGGa-------CCG-AGCCAGcuau -5'
20400 5' -58.1 NC_004687.1 + 140295 0.67 0.761749
Target:  5'- cGAuCGGCGAUgacgGCCUGGCggUUGGUCa--- -3'
miRNA:   3'- -CU-GCCGCUG----UGGACCG--AGCCAGcuau -5'
20400 5' -58.1 NC_004687.1 + 21845 0.67 0.761749
Target:  5'- uAUGGCG-CACCgcUGGCUgcgCGGUCGGc- -3'
miRNA:   3'- cUGCCGCuGUGG--ACCGA---GCCAGCUau -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.