miRNA display CGI


Results 1 - 20 of 40 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
19684 3' -54.7 NC_004686.1 + 30324 1.1 0.000862
Target:  5'- aUCACCCUCACAGCCACCACACAUCAGg -3'
miRNA:   3'- -AGUGGGAGUGUCGGUGGUGUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 30011 0.86 0.045546
Target:  5'- -aACCCUCACAaCCACCACACAUCAc -3'
miRNA:   3'- agUGGGAGUGUcGGUGGUGUGUAGUc -5'
19684 3' -54.7 NC_004686.1 + 22330 0.83 0.077178
Target:  5'- cUCGCCCUCGCGGCCGgCCuuCGCGUCAc -3'
miRNA:   3'- -AGUGGGAGUGUCGGU-GGu-GUGUAGUc -5'
19684 3' -54.7 NC_004686.1 + 27034 0.72 0.371021
Target:  5'- aCACCCccaCAUAGCCAucaauCCACGgAUCAGa -3'
miRNA:   3'- aGUGGGa--GUGUCGGU-----GGUGUgUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 23661 0.7 0.465963
Target:  5'- cUCACCCUgACGGgCACCACgaGCGUg-- -3'
miRNA:   3'- -AGUGGGAgUGUCgGUGGUG--UGUAguc -5'
19684 3' -54.7 NC_004686.1 + 38745 0.7 0.465963
Target:  5'- aCACCUcgCGCGGCUGCaCAC-CGUCAGa -3'
miRNA:   3'- aGUGGGa-GUGUCGGUG-GUGuGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 44864 0.7 0.496832
Target:  5'- aUCGCCC-CACuuGCCGCCuuCACuccaGUCAGg -3'
miRNA:   3'- -AGUGGGaGUGu-CGGUGGu-GUG----UAGUC- -5'
19684 3' -54.7 NC_004686.1 + 19865 0.7 0.517914
Target:  5'- aUCACCCUgggaCGCAGCCGCUcaACcUCGGc -3'
miRNA:   3'- -AGUGGGA----GUGUCGGUGGugUGuAGUC- -5'
19684 3' -54.7 NC_004686.1 + 50655 0.7 0.517914
Target:  5'- aCGCCCUgAUcGCCAUCGCACAacuacUCAa -3'
miRNA:   3'- aGUGGGAgUGuCGGUGGUGUGU-----AGUc -5'
19684 3' -54.7 NC_004686.1 + 30596 0.69 0.526447
Target:  5'- uUCAgCCaucguugggaacCACAaCCACCACACAUCAGc -3'
miRNA:   3'- -AGUgGGa-----------GUGUcGGUGGUGUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 21610 0.69 0.528589
Target:  5'- cCGCCCUCACcuGCUGCaCACAgGUgGGg -3'
miRNA:   3'- aGUGGGAGUGu-CGGUG-GUGUgUAgUC- -5'
19684 3' -54.7 NC_004686.1 + 55287 0.69 0.550171
Target:  5'- aCACCC-CACguuuugccGGCCuGCCGCGCAaugcUCAGg -3'
miRNA:   3'- aGUGGGaGUG--------UCGG-UGGUGUGU----AGUC- -5'
19684 3' -54.7 NC_004686.1 + 38315 0.68 0.58302
Target:  5'- aCACCCggccacucCACAuCCGCCGCAC-UCGGc -3'
miRNA:   3'- aGUGGGa-------GUGUcGGUGGUGUGuAGUC- -5'
19684 3' -54.7 NC_004686.1 + 25035 0.68 0.601815
Target:  5'- cUCGCCCUCaucgcccagcacgaGCAGCaCACC-CACAaguacggaaccUCAGu -3'
miRNA:   3'- -AGUGGGAG--------------UGUCG-GUGGuGUGU-----------AGUC- -5'
19684 3' -54.7 NC_004686.1 + 43739 0.68 0.627357
Target:  5'- gCACgCaacCugGGCCGCCGCGcCAUCGGc -3'
miRNA:   3'- aGUGgGa--GugUCGGUGGUGU-GUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 39322 0.68 0.627357
Target:  5'- -aGCCCUCAauaguguugcCGGCCGCCaACGCAaCAc -3'
miRNA:   3'- agUGGGAGU----------GUCGGUGG-UGUGUaGUc -5'
19684 3' -54.7 NC_004686.1 + 22553 0.68 0.627357
Target:  5'- -aACCCgcCGCAGCCGCCcuCAcCAUCAc -3'
miRNA:   3'- agUGGGa-GUGUCGGUGGu-GU-GUAGUc -5'
19684 3' -54.7 NC_004686.1 + 20024 0.68 0.638476
Target:  5'- -aACCgUUCACGGCCACCGC-CGUg-- -3'
miRNA:   3'- agUGG-GAGUGUCGGUGGUGuGUAguc -5'
19684 3' -54.7 NC_004686.1 + 22369 0.68 0.638476
Target:  5'- gUCGCCgUCGCAGCC-CUGCagaGCAUgGGc -3'
miRNA:   3'- -AGUGGgAGUGUCGGuGGUG---UGUAgUC- -5'
19684 3' -54.7 NC_004686.1 + 38069 0.68 0.638476
Target:  5'- cCGCCCguUC-CuGCCGCCGCAcCAUUGGg -3'
miRNA:   3'- aGUGGG--AGuGuCGGUGGUGU-GUAGUC- -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.