miRNA display CGI


Results 1 - 20 of 89 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
31042 3' -64.2 NC_006560.1 + 22858 0.66 0.544444
Target:  5'- uGCUCuacgGCggccugGGCGAcagccgcccgggGCuCUGGGGCGCg- -3'
miRNA:   3'- gCGAG----CGa-----CCGCU------------CG-GACCCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 77705 0.66 0.544444
Target:  5'- cCGCUCGCg---GAGCCgGcGGGCGCc- -3'
miRNA:   3'- -GCGAGCGaccgCUCGGaC-CCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 57250 0.66 0.544444
Target:  5'- aCGCggCGCgGGgGGGCCUcGGGGUccgGCg- -3'
miRNA:   3'- -GCGa-GCGaCCgCUCGGA-CCCCG---CGac -5'
31042 3' -64.2 NC_006560.1 + 35273 0.66 0.544444
Target:  5'- cCGC-CGCgccgGGCGgcggGGCCcgggguccgGGGGCGCg- -3'
miRNA:   3'- -GCGaGCGa---CCGC----UCGGa--------CCCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 47170 0.66 0.534951
Target:  5'- aGCUCGCgagGcGCGAGg--GGGGcCGCUa -3'
miRNA:   3'- gCGAGCGa--C-CGCUCggaCCCC-GCGAc -5'
31042 3' -64.2 NC_006560.1 + 118040 0.66 0.534951
Target:  5'- gGCUCgGCgggGGCGGGCCcGgcgccgccgcGGGCGCc- -3'
miRNA:   3'- gCGAG-CGa--CCGCUCGGaC----------CCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 63308 0.66 0.534951
Target:  5'- gCGgUCGUguccccGGCG-GCaCUGGGGCGUg- -3'
miRNA:   3'- -GCgAGCGa-----CCGCuCG-GACCCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 98436 0.66 0.524577
Target:  5'- gCGC-CGCUGGCGGGCggcGGcgaggacGGCGCg- -3'
miRNA:   3'- -GCGaGCGACCGCUCGga-CC-------CCGCGac -5'
31042 3' -64.2 NC_006560.1 + 51150 0.66 0.524577
Target:  5'- uGcCUCGC-GGCGcgcgaGGCCgccuuucUGGGGCGCg- -3'
miRNA:   3'- gC-GAGCGaCCGC-----UCGG-------ACCCCGCGac -5'
31042 3' -64.2 NC_006560.1 + 76640 0.66 0.518951
Target:  5'- gCGCUCGCUGGaggccgcCGcGGCCgagugggacgaggugUGGGuGCGCUu -3'
miRNA:   3'- -GCGAGCGACC-------GC-UCGG---------------ACCC-CGCGAc -5'
31042 3' -64.2 NC_006560.1 + 34705 0.66 0.516147
Target:  5'- gCGuCUCGgUGGCucucucGGGCCgGGGGuCGCUc -3'
miRNA:   3'- -GC-GAGCgACCG------CUCGGaCCCC-GCGAc -5'
31042 3' -64.2 NC_006560.1 + 51981 0.66 0.506845
Target:  5'- gGCggGC-GGCGGGCCUGccGGCGCg- -3'
miRNA:   3'- gCGagCGaCCGCUCGGACc-CCGCGac -5'
31042 3' -64.2 NC_006560.1 + 93944 0.66 0.504068
Target:  5'- aCGCgcagCGCgagGGCGAGCgccugcugggcuguCUGGaGGCGUUc -3'
miRNA:   3'- -GCGa---GCGa--CCGCUCG--------------GACC-CCGCGAc -5'
31042 3' -64.2 NC_006560.1 + 104417 0.66 0.497615
Target:  5'- gGCUCG-UGGCGGGCCgacUGGcaccggcuGGCGCc- -3'
miRNA:   3'- gCGAGCgACCGCUCGG---ACC--------CCGCGac -5'
31042 3' -64.2 NC_006560.1 + 105033 0.66 0.497615
Target:  5'- gCGCUcCGC-GGCGccGCCgcggggGGGGUGCUc -3'
miRNA:   3'- -GCGA-GCGaCCGCu-CGGa-----CCCCGCGAc -5'
31042 3' -64.2 NC_006560.1 + 36901 0.66 0.497615
Target:  5'- aCGCUCccgGCgccgGGcCGAGCgccggagcguCUGGcGGCGCUGc -3'
miRNA:   3'- -GCGAG---CGa---CC-GCUCG----------GACC-CCGCGAC- -5'
31042 3' -64.2 NC_006560.1 + 94964 0.66 0.497615
Target:  5'- cCGCgUGCUGGCGcGCaucgGGGGCGg-- -3'
miRNA:   3'- -GCGaGCGACCGCuCGga--CCCCGCgac -5'
31042 3' -64.2 NC_006560.1 + 128473 0.66 0.497615
Target:  5'- aCGC-CGCcgGGCGAcgugGCCacgUGGGGCGaCUa -3'
miRNA:   3'- -GCGaGCGa-CCGCU----CGG---ACCCCGC-GAc -5'
31042 3' -64.2 NC_006560.1 + 131662 0.66 0.496696
Target:  5'- gGCgUCGCcGGCGAGgcCCUggcgggcGGGGgGCUGc -3'
miRNA:   3'- gCG-AGCGaCCGCUC--GGA-------CCCCgCGAC- -5'
31042 3' -64.2 NC_006560.1 + 136086 0.66 0.488461
Target:  5'- aCGCg-GCUGGCG-GCgUucacgcacGGGGCGCUc -3'
miRNA:   3'- -GCGagCGACCGCuCGgA--------CCCCGCGAc -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.