miRNA display CGI


Results 1 - 17 of 17 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
19260 3' -55.4 NC_004684.1 + 29213 0.66 0.790956
Target:  5'- gGUCAGGGuaacugcuCGCGGUGUUaUCgUCCGg -3'
miRNA:   3'- gCAGUCUCu-------GCGCCGCAAcAG-AGGUg -5'
19260 3' -55.4 NC_004684.1 + 63885 0.67 0.730787
Target:  5'- cCGUCGGcGAuUGCGGCGUccUGgcggCCACg -3'
miRNA:   3'- -GCAGUCuCU-GCGCCGCA--ACaga-GGUG- -5'
19260 3' -55.4 NC_004684.1 + 48405 0.67 0.720362
Target:  5'- gCGUUGGuGugGCGGCGaaucUGgucaaaccgCUCCACc -3'
miRNA:   3'- -GCAGUCuCugCGCCGCa---ACa--------GAGGUG- -5'
19260 3' -55.4 NC_004684.1 + 35653 0.67 0.69927
Target:  5'- aCGUaCAGGGcCGuCGGCGgcggugUGUCgCCACc -3'
miRNA:   3'- -GCA-GUCUCuGC-GCCGCa-----ACAGaGGUG- -5'
19260 3' -55.4 NC_004684.1 + 58542 0.68 0.645623
Target:  5'- gCGUUGGAGAUGCGaGCGgccuUCUCCu- -3'
miRNA:   3'- -GCAGUCUCUGCGC-CGCaac-AGAGGug -5'
19260 3' -55.4 NC_004684.1 + 28515 0.68 0.634818
Target:  5'- uGUcCAGcGugGCGGCGUUGaa-CCGCg -3'
miRNA:   3'- gCA-GUCuCugCGCCGCAACagaGGUG- -5'
19260 3' -55.4 NC_004684.1 + 63043 0.69 0.570252
Target:  5'- uCGUCGGAGACcucaGCGGUGggUGUCauaggcacUCCAg -3'
miRNA:   3'- -GCAGUCUCUG----CGCCGCa-ACAG--------AGGUg -5'
19260 3' -55.4 NC_004684.1 + 63831 0.71 0.47708
Target:  5'- gGUgCGGAuGGCGCGGCGcacgcUGUCggugCCACg -3'
miRNA:   3'- gCA-GUCU-CUGCGCCGCa----ACAGa---GGUG- -5'
19260 3' -55.4 NC_004684.1 + 33550 0.71 0.465203
Target:  5'- cCGUCcuguuGAGGCGCGGCGUcgacaucccgugGUCgaCCACg -3'
miRNA:   3'- -GCAGu----CUCUGCGCCGCAa-----------CAGa-GGUG- -5'
19260 3' -55.4 NC_004684.1 + 10781 0.72 0.447682
Target:  5'- uGUCGGGGuuCGcCGGUGUguUGUgCUCCACg -3'
miRNA:   3'- gCAGUCUCu-GC-GCCGCA--ACA-GAGGUG- -5'
19260 3' -55.4 NC_004684.1 + 49547 0.72 0.446719
Target:  5'- gGUCGGuGACgcacaccuugccaGCGGCGUUGgucugCUCCAg -3'
miRNA:   3'- gCAGUCuCUG-------------CGCCGCAACa----GAGGUg -5'
19260 3' -55.4 NC_004684.1 + 19169 0.72 0.401022
Target:  5'- aCGUCGacauCGCGGUGUUGUCUCCc- -3'
miRNA:   3'- -GCAGUcucuGCGCCGCAACAGAGGug -5'
19260 3' -55.4 NC_004684.1 + 20486 0.73 0.365998
Target:  5'- gGUCcugGGGGAUGCGGCGggGUgCUCgGCu -3'
miRNA:   3'- gCAG---UCUCUGCGCCGCaaCA-GAGgUG- -5'
19260 3' -55.4 NC_004684.1 + 61066 0.74 0.325273
Target:  5'- --aCGGgccGGugGCGGCaUUGUCUCCGCa -3'
miRNA:   3'- gcaGUC---UCugCGCCGcAACAGAGGUG- -5'
19260 3' -55.4 NC_004684.1 + 61714 0.75 0.280976
Target:  5'- gCGUCAG-GAUGCcaccGGCGUUGugcuUCUCCACc -3'
miRNA:   3'- -GCAGUCuCUGCG----CCGCAAC----AGAGGUG- -5'
19260 3' -55.4 NC_004684.1 + 66450 1.05 0.002367
Target:  5'- aCGUCAGGGugGCGGCGUUGUCUCCACg -3'
miRNA:   3'- -GCAGUCUCugCGCCGCAACAGAGGUG- -5'
19260 3' -55.4 NC_004684.1 + 65212 1.1 0.001136
Target:  5'- aCGUCAGAGACGCGGCGUUGUCUCCACu -3'
miRNA:   3'- -GCAGUCUCUGCGCCGCAACAGAGGUG- -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.