miRNA display CGI


Results 1 - 20 of 43 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
23437 5' -54.8 NC_005259.1 + 4664 0.68 0.721688
Target:  5'- aCGGGcaCGGUGucuGCACUGGcUCGGGCc -3'
miRNA:   3'- gGUUCcaGUCAC---UGUGGCCuAGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 7598 0.76 0.31416
Target:  5'- cUCAAGGUCGGUGACACCcucacccacgaGGGCc -3'
miRNA:   3'- -GGUUCCAGUCACUGUGGccuag------CCCG- -5'
23437 5' -54.8 NC_005259.1 + 9192 0.69 0.668973
Target:  5'- gUCGAGGUCGucauacGGgGCCGGAUCGaGCa -3'
miRNA:   3'- -GGUUCCAGUca----CUgUGGCCUAGCcCG- -5'
23437 5' -54.8 NC_005259.1 + 9691 0.69 0.679622
Target:  5'- gUCGAGGUCGccgcucacugGGCACCGuccUCGGGCc -3'
miRNA:   3'- -GGUUCCAGUca--------CUGUGGCcu-AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 10730 0.67 0.791644
Target:  5'- -uGAuGUCGGUGAUcaccgcgcgcuGCCGGGcgaucaucaugUCGGGCg -3'
miRNA:   3'- ggUUcCAGUCACUG-----------UGGCCU-----------AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 12053 0.66 0.810367
Target:  5'- aCCGAGGccgagcucugCGGcaGACACCGaGAU-GGGCa -3'
miRNA:   3'- -GGUUCCa---------GUCa-CUGUGGC-CUAgCCCG- -5'
23437 5' -54.8 NC_005259.1 + 17355 0.68 0.721688
Target:  5'- gUCGAGGUCGGcggcucGGCGCUGG-UCGuGGUc -3'
miRNA:   3'- -GGUUCCAGUCa-----CUGUGGCCuAGC-CCG- -5'
23437 5' -54.8 NC_005259.1 + 17469 0.66 0.801089
Target:  5'- cCCAccGU-GGUGACGcCCGGccaugCGGGCa -3'
miRNA:   3'- -GGUucCAgUCACUGU-GGCCua---GCCCG- -5'
23437 5' -54.8 NC_005259.1 + 18153 0.77 0.257554
Target:  5'- aCGAGaUCGGgcUGACGCCGGAUCuGGCa -3'
miRNA:   3'- gGUUCcAGUC--ACUGUGGCCUAGcCCG- -5'
23437 5' -54.8 NC_005259.1 + 23311 0.74 0.377966
Target:  5'- uCCGGcgcGGUCGGUGucgccgaGCCGGAuuacaUCGGGCu -3'
miRNA:   3'- -GGUU---CCAGUCACug-----UGGCCU-----AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 24369 0.7 0.615427
Target:  5'- aCCGAGGUCuGGUGGCgcuACCGGAguacgUCGaacGCa -3'
miRNA:   3'- -GGUUCCAG-UCACUG---UGGCCU-----AGCc--CG- -5'
23437 5' -54.8 NC_005259.1 + 25204 0.68 0.700782
Target:  5'- aCCGGGGUCAGcGGCuacaagcCCGcGuuuuuccUCGGGCa -3'
miRNA:   3'- -GGUUCCAGUCaCUGu------GGC-Cu------AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 25683 0.68 0.685992
Target:  5'- gUCGAGGcCGGUgucccaccccaaagGACACCGGccucgcuGUUGGGUa -3'
miRNA:   3'- -GGUUCCaGUCA--------------CUGUGGCC-------UAGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 26817 0.67 0.762403
Target:  5'- gCCGGuaccGG-CGGUGGUGCCGGGgcggucugcUCGGGCa -3'
miRNA:   3'- -GGUU----CCaGUCACUGUGGCCU---------AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 27478 0.7 0.609003
Target:  5'- gCCGGGGUCGGUGuggccaccgccccacGCGCCGaGGUCGa-- -3'
miRNA:   3'- -GGUUCCAGUCAC---------------UGUGGC-CUAGCccg -5'
23437 5' -54.8 NC_005259.1 + 31499 0.68 0.73202
Target:  5'- gCAGGGUCucaccGCGCCGGAcuugcuugaUCGGGg -3'
miRNA:   3'- gGUUCCAGucac-UGUGGCCU---------AGCCCg -5'
23437 5' -54.8 NC_005259.1 + 32895 0.66 0.819467
Target:  5'- aCCGGGGgcgagGGUGAgcCAcCCGGcccgcUCGGGCg -3'
miRNA:   3'- -GGUUCCag---UCACU--GU-GGCCu----AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 34152 0.7 0.583392
Target:  5'- uCCGAGGUC-GUGGugccccaccagUGCCGGAacacacCGGGCa -3'
miRNA:   3'- -GGUUCCAGuCACU-----------GUGGCCUa-----GCCCG- -5'
23437 5' -54.8 NC_005259.1 + 34868 0.67 0.752388
Target:  5'- uCCuc-GUCGGUGccGgACCGGGgugccUCGGGCa -3'
miRNA:   3'- -GGuucCAGUCAC--UgUGGCCU-----AGCCCG- -5'
23437 5' -54.8 NC_005259.1 + 38627 0.71 0.551701
Target:  5'- aUCGAGGgCGGUGACGCCGaGUUGG-Cg -3'
miRNA:   3'- -GGUUCCaGUCACUGUGGCcUAGCCcG- -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.