miRNA display CGI


Results 1 - 20 of 64 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
16401 3' -57.1 NC_004084.1 + 18143 1.11 0.000719
Target:  5'- uGGAACGACGUCGCCGGCGAGUGGACGa -3'
miRNA:   3'- -CCUUGCUGCAGCGGCCGCUCACCUGC- -5'
16401 3' -57.1 NC_004084.1 + 57411 0.82 0.075629
Target:  5'- ---uCGACGUCGCCGGCGAgcucgagGUGGACa -3'
miRNA:   3'- ccuuGCUGCAGCGGCCGCU-------CACCUGc -5'
16401 3' -57.1 NC_004084.1 + 23063 0.81 0.094544
Target:  5'- --cGCGAuCGUCGCCGGCGAcgcgacgagGUGGACGu -3'
miRNA:   3'- ccuUGCU-GCAGCGGCCGCU---------CACCUGC- -5'
16401 3' -57.1 NC_004084.1 + 44957 0.78 0.153661
Target:  5'- aGAACGGCGuUCGUC-GCGAGUGGACc -3'
miRNA:   3'- cCUUGCUGC-AGCGGcCGCUCACCUGc -5'
16401 3' -57.1 NC_004084.1 + 46693 0.76 0.217659
Target:  5'- cGAGC-ACGUCGCCGGCGAcgucuaccgcgacgaGUGGuCGg -3'
miRNA:   3'- cCUUGcUGCAGCGGCCGCU---------------CACCuGC- -5'
16401 3' -57.1 NC_004084.1 + 46497 0.75 0.221
Target:  5'- uGGucGCGACGUCGCCGGUcgccGAGUuGAUGa -3'
miRNA:   3'- -CCu-UGCUGCAGCGGCCG----CUCAcCUGC- -5'
16401 3' -57.1 NC_004084.1 + 11723 0.74 0.250576
Target:  5'- cGGua-GACGUCGCCGGCGAcGUGcuCGa -3'
miRNA:   3'- -CCuugCUGCAGCGGCCGCU-CACcuGC- -5'
16401 3' -57.1 NC_004084.1 + 55901 0.73 0.290286
Target:  5'- -cGACGACGaucCGCCGGagGAGUGGGCc -3'
miRNA:   3'- ccUUGCUGCa--GCGGCCg-CUCACCUGc -5'
16401 3' -57.1 NC_004084.1 + 17158 0.73 0.311924
Target:  5'- gGGAcgaucgccgGCGACGUCGaaGGCGAG-GGAgGc -3'
miRNA:   3'- -CCU---------UGCUGCAGCggCCGCUCaCCUgC- -5'
16401 3' -57.1 NC_004084.1 + 22591 0.72 0.350658
Target:  5'- --cACGACGUCGCCGaCGAGacGGugGu -3'
miRNA:   3'- ccuUGCUGCAGCGGCcGCUCa-CCugC- -5'
16401 3' -57.1 NC_004084.1 + 7958 0.71 0.391817
Target:  5'- cGAACGACacCGCCgaccgcaggacgaGGCGAGUGGAaCGa -3'
miRNA:   3'- cCUUGCUGcaGCGG-------------CCGCUCACCU-GC- -5'
16401 3' -57.1 NC_004084.1 + 36080 0.71 0.392689
Target:  5'- aGGAccgcgACGAgGUCGCCGucuccuaCGAGUGGcACGg -3'
miRNA:   3'- -CCU-----UGCUgCAGCGGCc------GCUCACC-UGC- -5'
16401 3' -57.1 NC_004084.1 + 49852 0.71 0.40148
Target:  5'- ---uCGACGUCGCgagcgagaucCGGCGAGUccugcgGGACGa -3'
miRNA:   3'- ccuuGCUGCAGCG----------GCCGCUCA------CCUGC- -5'
16401 3' -57.1 NC_004084.1 + 16663 0.71 0.413994
Target:  5'- cGGGAgGuccuCGUCGCCGGCGucGUcccgaucgucauccgGGACGa -3'
miRNA:   3'- -CCUUgCu---GCAGCGGCCGCu-CA---------------CCUGC- -5'
16401 3' -57.1 NC_004084.1 + 10523 0.71 0.418522
Target:  5'- cGGAGCGAccgucgaCGUUGCCGaGCcAGcGGACGa -3'
miRNA:   3'- -CCUUGCU-------GCAGCGGC-CGcUCaCCUGC- -5'
16401 3' -57.1 NC_004084.1 + 30112 0.7 0.428587
Target:  5'- ----gGACGUCGCUGGgGAGcGGGCc -3'
miRNA:   3'- ccuugCUGCAGCGGCCgCUCaCCUGc -5'
16401 3' -57.1 NC_004084.1 + 22706 0.7 0.43786
Target:  5'- uGGAugGAuCGUC-CCGGCGAGcgacccGACGa -3'
miRNA:   3'- -CCUugCU-GCAGcGGCCGCUCac----CUGC- -5'
16401 3' -57.1 NC_004084.1 + 53104 0.7 0.43786
Target:  5'- aGGAGgcacuCGACGgaGCCGcCGAGUGGAUGg -3'
miRNA:   3'- -CCUU-----GCUGCagCGGCcGCUCACCUGC- -5'
16401 3' -57.1 NC_004084.1 + 4947 0.7 0.456745
Target:  5'- uGGAUGACGUcCGCCGG-GAGacGACGa -3'
miRNA:   3'- cCUUGCUGCA-GCGGCCgCUCacCUGC- -5'
16401 3' -57.1 NC_004084.1 + 18809 0.7 0.456745
Target:  5'- -cGAgGACGUCGCCGGCcacguccaGGaGGACGg -3'
miRNA:   3'- ccUUgCUGCAGCGGCCGc-------UCaCCUGC- -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.