miRNA display CGI


Results 1 - 20 of 31 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
20430 5' -54.9 NC_004688.1 + 18185 1.11 0.00199
Target:  5'- gACCAUCAGGUUGGCGACAUCCACGGCc -3'
miRNA:   3'- -UGGUAGUCCAACCGCUGUAGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 39905 0.77 0.311745
Target:  5'- uGCCGUCGGGguuuUUGGCGuAgGUCCAguCGGCg -3'
miRNA:   3'- -UGGUAGUCC----AACCGC-UgUAGGU--GCCG- -5'
20430 5' -54.9 NC_004688.1 + 31007 0.75 0.41833
Target:  5'- gUCGUCGGcGUUGGCGAUcaCCACGGg -3'
miRNA:   3'- uGGUAGUC-CAACCGCUGuaGGUGCCg -5'
20430 5' -54.9 NC_004688.1 + 10683 0.73 0.492002
Target:  5'- uCCGUCAGGUcgaccucaugggcgcUGGgGGCGgucagcgcggcguugUCCGCGGCc -3'
miRNA:   3'- uGGUAGUCCA---------------ACCgCUGU---------------AGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 79349 0.72 0.585689
Target:  5'- uCCG-CGGGUUGGCGAa---CAUGGCg -3'
miRNA:   3'- uGGUaGUCCAACCGCUguagGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 10049 0.72 0.586734
Target:  5'- gGCCuUCAGGgUGGCGACugcuucaaccgccgCCGCGcGCa -3'
miRNA:   3'- -UGGuAGUCCaACCGCUGua------------GGUGC-CG- -5'
20430 5' -54.9 NC_004688.1 + 85333 0.71 0.648695
Target:  5'- aACCGaUAGGUguaguUGGCGGCAUCCGaGGa -3'
miRNA:   3'- -UGGUaGUCCA-----ACCGCUGUAGGUgCCg -5'
20430 5' -54.9 NC_004688.1 + 981 0.71 0.648695
Target:  5'- gGCCGUCGacaaucucgauGGUcacGGCGACGggcucaccaUCCGCGGUg -3'
miRNA:   3'- -UGGUAGU-----------CCAa--CCGCUGU---------AGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 5078 0.71 0.659197
Target:  5'- gACCGUCAGGgugcGGUGcucccGC-UUCACGGCg -3'
miRNA:   3'- -UGGUAGUCCaa--CCGC-----UGuAGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 97288 0.7 0.680124
Target:  5'- -gUAUCAagcGGuUUGGCGuCGUCUGCGGCg -3'
miRNA:   3'- ugGUAGU---CC-AACCGCuGUAGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 101644 0.7 0.711177
Target:  5'- gGCCAUC----UGGCGcACGUCCaggACGGCg -3'
miRNA:   3'- -UGGUAGuccaACCGC-UGUAGG---UGCCG- -5'
20430 5' -54.9 NC_004688.1 + 10822 0.7 0.711177
Target:  5'- gACguUCAacuuGUUGGCGuaGUCCGCGGCg -3'
miRNA:   3'- -UGguAGUc---CAACCGCugUAGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 94616 0.68 0.780682
Target:  5'- aGCCAUCccauuuuacaggGGGUgacugGGCGccCAUCCACcagGGCg -3'
miRNA:   3'- -UGGUAG------------UCCAa----CCGCu-GUAGGUG---CCG- -5'
20430 5' -54.9 NC_004688.1 + 64243 0.68 0.799422
Target:  5'- cGCCAuUUAGG-UGGCGGCAgUCCAgcguCGGg -3'
miRNA:   3'- -UGGU-AGUCCaACCGCUGU-AGGU----GCCg -5'
20430 5' -54.9 NC_004688.1 + 20512 0.68 0.799422
Target:  5'- uGCCAUCGuuGUccugGGUGACGUCgaagcgCACGGCg -3'
miRNA:   3'- -UGGUAGUc-CAa---CCGCUGUAG------GUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 103784 0.68 0.817523
Target:  5'- cGCCGUacgaacUAGGUaaggcuUGGgGAUA-CCGCGGCg -3'
miRNA:   3'- -UGGUA------GUCCA------ACCgCUGUaGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 4002 0.68 0.817523
Target:  5'- cGCCGUcCAGac-GGCGGCGUgcaCGCGGCc -3'
miRNA:   3'- -UGGUA-GUCcaaCCGCUGUAg--GUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 16681 0.67 0.82631
Target:  5'- uGCgGUaGGGUUGG-GGCAUC-GCGGCg -3'
miRNA:   3'- -UGgUAgUCCAACCgCUGUAGgUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 84096 0.67 0.834912
Target:  5'- -gCAUCAGGagGGCGuCG-CUGCGGUg -3'
miRNA:   3'- ugGUAGUCCaaCCGCuGUaGGUGCCG- -5'
20430 5' -54.9 NC_004688.1 + 51181 0.67 0.834912
Target:  5'- -gCAUCugcGGGUggucGGCGGCAggCgACGGCg -3'
miRNA:   3'- ugGUAG---UCCAa---CCGCUGUa-GgUGCCG- -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.