miRNA display CGI


Results 1 - 20 of 55 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
23269 3' -57.7 NC_005259.1 + 41391 0.66 0.69529
Target:  5'- gCCGGuacccaugGCGCGCCGC--UCGGGGugcccaCGAUg -3'
miRNA:   3'- -GGCC--------UGCGCGGCGuuAGCUCUg-----GCUA- -5'
23269 3' -57.7 NC_005259.1 + 53024 0.66 0.69529
Target:  5'- gCGGugGCGUCGaggcAUCGuGACCu-- -3'
miRNA:   3'- gGCCugCGCGGCgu--UAGCuCUGGcua -5'
23269 3' -57.7 NC_005259.1 + 14176 0.66 0.694249
Target:  5'- gCCGGGCGgGUgGCAAcCGcucacccccgagcAGGCCGGg -3'
miRNA:   3'- -GGCCUGCgCGgCGUUaGC-------------UCUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 57033 0.66 0.684855
Target:  5'- gCGGugGgGUCGCAcucGUCGuAGGCCc-- -3'
miRNA:   3'- gGCCugCgCGGCGU---UAGC-UCUGGcua -5'
23269 3' -57.7 NC_005259.1 + 44159 0.66 0.683809
Target:  5'- gCGGucgagcaGCGCGCCGguGUCGGagaaaagucGACCGc- -3'
miRNA:   3'- gGCC-------UGCGCGGCguUAGCU---------CUGGCua -5'
23269 3' -57.7 NC_005259.1 + 29267 0.66 0.674374
Target:  5'- aUCGucCGCGCCGUGGaCGAGAUCGc- -3'
miRNA:   3'- -GGCcuGCGCGGCGUUaGCUCUGGCua -5'
23269 3' -57.7 NC_005259.1 + 27508 0.66 0.674374
Target:  5'- gCCGaggucGACGUGuCCGCAcacgccGUCGAGGCCc-- -3'
miRNA:   3'- -GGC-----CUGCGC-GGCGU------UAGCUCUGGcua -5'
23269 3' -57.7 NC_005259.1 + 6087 0.66 0.673323
Target:  5'- -aGGACGCccucaacGCCGaGAUcgcCGAGGCCGAg -3'
miRNA:   3'- ggCCUGCG-------CGGCgUUA---GCUCUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 9170 0.66 0.673323
Target:  5'- gCCGGugGCaGCCGaugcaauGGUCGAGgucgucauacgggGCCGGa -3'
miRNA:   3'- -GGCCugCG-CGGCg------UUAGCUC-------------UGGCUa -5'
23269 3' -57.7 NC_005259.1 + 18158 0.66 0.673323
Target:  5'- aUCGGGCuGaCGCCggaucugGCAGUCGAGGUCGAc -3'
miRNA:   3'- -GGCCUG-C-GCGG-------CGUUAGCUCUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 14708 0.66 0.673323
Target:  5'- gCCGcGACGaacagcaCGCCGCGcUCGucGCCGAg -3'
miRNA:   3'- -GGC-CUGC-------GCGGCGUuAGCucUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 19662 0.66 0.660694
Target:  5'- cUCGGGCa-GCCGCuacauccccggucaGGUCGGGAUCGAg -3'
miRNA:   3'- -GGCCUGcgCGGCG--------------UUAGCUCUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 23284 0.66 0.65331
Target:  5'- aCCGGGCGCGgUgguugGguAUCGGGGuCCGGc -3'
miRNA:   3'- -GGCCUGCGCgG-----CguUAGCUCU-GGCUa -5'
23269 3' -57.7 NC_005259.1 + 32925 0.66 0.65331
Target:  5'- cUCGGGCGCGgCGguAUCGucACCa-- -3'
miRNA:   3'- -GGCCUGCGCgGCguUAGCucUGGcua -5'
23269 3' -57.7 NC_005259.1 + 54366 0.66 0.65331
Target:  5'- aCGGAuUGCGCuCGCGAUC---ACCGAUg -3'
miRNA:   3'- gGCCU-GCGCG-GCGUUAGcucUGGCUA- -5'
23269 3' -57.7 NC_005259.1 + 54252 0.66 0.650142
Target:  5'- gUCGGGCGCGugaacgcgccuaguCCGUuuccCGAGACUGAa -3'
miRNA:   3'- -GGCCUGCGC--------------GGCGuua-GCUCUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 28324 0.66 0.642746
Target:  5'- aUCGG-UGUGCCGUccuuggcggcgaAAUCGAGGCCa-- -3'
miRNA:   3'- -GGCCuGCGCGGCG------------UUAGCUCUGGcua -5'
23269 3' -57.7 NC_005259.1 + 60537 0.66 0.642746
Target:  5'- gCCgGGACGCaGCCGCucGUCGGcauGcCCGGUg -3'
miRNA:   3'- -GG-CCUGCG-CGGCGu-UAGCU---CuGGCUA- -5'
23269 3' -57.7 NC_005259.1 + 18332 0.67 0.632174
Target:  5'- gCCGG-UGCGuUCGUggUCGAcGCCGAc -3'
miRNA:   3'- -GGCCuGCGC-GGCGuuAGCUcUGGCUa -5'
23269 3' -57.7 NC_005259.1 + 44841 0.67 0.632174
Target:  5'- uCCGacacCGCGCCcgaGCAGUCGcucAGACCGGc -3'
miRNA:   3'- -GGCcu--GCGCGG---CGUUAGC---UCUGGCUa -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.