miRNA display CGI


Results 1 - 20 of 52 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
1464 3' -55.4 NC_001335.1 + 32845 0.66 0.728052
Target:  5'- aGCCgAGGCCGUCGuc-ACC-GUcgCCg -3'
miRNA:   3'- cUGG-UCCGGCAGCuuaUGGcCGuaGG- -5'
1464 3' -55.4 NC_001335.1 + 32609 0.66 0.728052
Target:  5'- uGGCCAccgccGCCGcCGuugGCCGGCGcggaUCCa -3'
miRNA:   3'- -CUGGUc----CGGCaGCuuaUGGCCGU----AGG- -5'
1464 3' -55.4 NC_001335.1 + 5814 0.66 0.71743
Target:  5'- aACguGGCUGaCGAcaccguCUGGCGUCCa -3'
miRNA:   3'- cUGguCCGGCaGCUuau---GGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 39874 0.66 0.71743
Target:  5'- --gCAGGCCGUCGugcgacgugACCaGC-UCCg -3'
miRNA:   3'- cugGUCCGGCAGCuua------UGGcCGuAGG- -5'
1464 3' -55.4 NC_001335.1 + 313 0.66 0.711015
Target:  5'- cGGCCuugaaGGGCCGgucauagagaucuauUCGAu--CCGGCAaCCg -3'
miRNA:   3'- -CUGG-----UCCGGC---------------AGCUuauGGCCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 30035 0.66 0.706723
Target:  5'- cGCC-GGCC-UCGAAggGCCgGGgGUCCa -3'
miRNA:   3'- cUGGuCCGGcAGCUUa-UGG-CCgUAGG- -5'
1464 3' -55.4 NC_001335.1 + 42342 0.66 0.685104
Target:  5'- cGACCGGcgcgaGCCG-CGugcGUcUCGGCGUCCa -3'
miRNA:   3'- -CUGGUC-----CGGCaGCu--UAuGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 27959 0.66 0.685104
Target:  5'- -uCCuGGCCGUCGAAguagaCGGCcuuGUCg -3'
miRNA:   3'- cuGGuCCGGCAGCUUaug--GCCG---UAGg -5'
1464 3' -55.4 NC_001335.1 + 51542 0.66 0.685104
Target:  5'- aACCGGagaaucuuGCCGcCGGAUuuucACCGGCA-CCg -3'
miRNA:   3'- cUGGUC--------CGGCaGCUUA----UGGCCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 8160 0.66 0.685103
Target:  5'- cACCGGGuuGuUCGG--GCUGGCGUUg -3'
miRNA:   3'- cUGGUCCggC-AGCUuaUGGCCGUAGg -5'
1464 3' -55.4 NC_001335.1 + 22079 0.66 0.684016
Target:  5'- cGAgCAGGCCGagagcguucuccaUCGugaccGCUGGCAUCg -3'
miRNA:   3'- -CUgGUCCGGC-------------AGCuua--UGGCCGUAGg -5'
1464 3' -55.4 NC_001335.1 + 23430 0.66 0.674212
Target:  5'- cGACCAGGUCaUCGAuuccgagagcgGUACgGGCugCCg -3'
miRNA:   3'- -CUGGUCCGGcAGCU-----------UAUGgCCGuaGG- -5'
1464 3' -55.4 NC_001335.1 + 17222 0.66 0.674212
Target:  5'- uGGCCgaGGGCCGUCGccagcGCCGGgAUg- -3'
miRNA:   3'- -CUGG--UCCGGCAGCuua--UGGCCgUAgg -5'
1464 3' -55.4 NC_001335.1 + 2494 0.67 0.663281
Target:  5'- -uCCGGGaCCGUUGAu--CUGGCAaagCCa -3'
miRNA:   3'- cuGGUCC-GGCAGCUuauGGCCGUa--GG- -5'
1464 3' -55.4 NC_001335.1 + 3481 0.67 0.662187
Target:  5'- gGACgCA-GCCGUCGGA-GCCGgaaacgcugucguGCAUCCg -3'
miRNA:   3'- -CUG-GUcCGGCAGCUUaUGGC-------------CGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 24208 0.67 0.652322
Target:  5'- cGCCuGGCCG-CGAGcGCCaGCA-CCg -3'
miRNA:   3'- cUGGuCCGGCaGCUUaUGGcCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 49857 0.67 0.652322
Target:  5'- cGCCAGGuuGUCGAgccucugcgaGUGCaGGUAgacagCCg -3'
miRNA:   3'- cUGGUCCggCAGCU----------UAUGgCCGUa----GG- -5'
1464 3' -55.4 NC_001335.1 + 20224 0.67 0.645737
Target:  5'- uGACCGGGuUCGUcCGAGggaugguccaacugGCCGGCGacggCCa -3'
miRNA:   3'- -CUGGUCC-GGCA-GCUUa-------------UGGCCGUa---GG- -5'
1464 3' -55.4 NC_001335.1 + 18709 0.68 0.597444
Target:  5'- -uUCAGGUag-CGggUACCGGaGUCCg -3'
miRNA:   3'- cuGGUCCGgcaGCuuAUGGCCgUAGG- -5'
1464 3' -55.4 NC_001335.1 + 22765 0.68 0.563714
Target:  5'- aGACCAguugguGGCCGUCGGcacgguaGUACCcucGGCcgCUg -3'
miRNA:   3'- -CUGGU------CCGGCAGCU-------UAUGG---CCGuaGG- -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.