miRNA display CGI


Results 1 - 19 of 19 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
23338 5' -59.8 NC_005259.1 + 59381 0.66 0.579425
Target:  5'- aCGCCgCAcCGUGCCUCcGCgcGCGAGc- -3'
miRNA:   3'- gGCGG-GU-GCACGGAGcUGa-CGCUCcu -5'
23338 5' -59.8 NC_005259.1 + 20326 0.66 0.538558
Target:  5'- aCCGUUCACGUGCa-CGACcuaugGCGGGcGGu -3'
miRNA:   3'- -GGCGGGUGCACGgaGCUGa----CGCUC-CU- -5'
23338 5' -59.8 NC_005259.1 + 29939 0.67 0.528488
Target:  5'- gCCGCCaCGCG-GCCcggucgCGGCUgGUGGGGc -3'
miRNA:   3'- -GGCGG-GUGCaCGGa-----GCUGA-CGCUCCu -5'
23338 5' -59.8 NC_005259.1 + 62209 0.67 0.52548
Target:  5'- aCCGCUCACacgagGUGCCUCGACcucgGUcucacgaucaaucuGAGGu -3'
miRNA:   3'- -GGCGGGUG-----CACGGAGCUGa---CG--------------CUCCu -5'
23338 5' -59.8 NC_005259.1 + 16594 0.67 0.518488
Target:  5'- aUCGCCCGCGagGCCaUCGgACUGUucaacgggccGAGGc -3'
miRNA:   3'- -GGCGGGUGCa-CGG-AGC-UGACG----------CUCCu -5'
23338 5' -59.8 NC_005259.1 + 36879 0.67 0.508565
Target:  5'- aCCGCCCGCGccgacgacGCCggugagCGccccACUGaCGGGGAu -3'
miRNA:   3'- -GGCGGGUGCa-------CGGa-----GC----UGAC-GCUCCU- -5'
23338 5' -59.8 NC_005259.1 + 55830 0.67 0.498722
Target:  5'- gCCG-CCGCGU-CCUCGAC-GCGuguGGAc -3'
miRNA:   3'- -GGCgGGUGCAcGGAGCUGaCGCu--CCU- -5'
23338 5' -59.8 NC_005259.1 + 37421 0.67 0.498722
Target:  5'- gCCGCCCGcCGUGCCaUUGGCcauCG-GGAc -3'
miRNA:   3'- -GGCGGGU-GCACGG-AGCUGac-GCuCCU- -5'
23338 5' -59.8 NC_005259.1 + 19180 0.67 0.498722
Target:  5'- gCGCUCAacgGUGcCCUCGACaGCGAGc- -3'
miRNA:   3'- gGCGGGUg--CAC-GGAGCUGaCGCUCcu -5'
23338 5' -59.8 NC_005259.1 + 50385 0.67 0.498722
Target:  5'- uCgGCCCACGUGUCgCGGCUcGcCGAGc- -3'
miRNA:   3'- -GgCGGGUGCACGGaGCUGA-C-GCUCcu -5'
23338 5' -59.8 NC_005259.1 + 8365 0.69 0.414484
Target:  5'- aUCGCUCgGCGgcgGCCUCGGCaucgGCGAGa- -3'
miRNA:   3'- -GGCGGG-UGCa--CGGAGCUGa---CGCUCcu -5'
23338 5' -59.8 NC_005259.1 + 9552 0.69 0.388401
Target:  5'- gCUGCCCg---GCCUCGACcgcgucgGCGAGGu -3'
miRNA:   3'- -GGCGGGugcaCGGAGCUGa------CGCUCCu -5'
23338 5' -59.8 NC_005259.1 + 33275 0.69 0.379949
Target:  5'- gCUGCgCACGUGCCUCcacugcauccacGGCUGCGGc-- -3'
miRNA:   3'- -GGCGgGUGCACGGAG------------CUGACGCUccu -5'
23338 5' -59.8 NC_005259.1 + 11050 0.7 0.339573
Target:  5'- aCCGCaUgACGUGCCgaUCGGCUcaGCGuGGAa -3'
miRNA:   3'- -GGCG-GgUGCACGG--AGCUGA--CGCuCCU- -5'
23338 5' -59.8 NC_005259.1 + 284 0.74 0.199521
Target:  5'- gCCGCCUACGcgGCCUCGcGCUGaucucgacCGGGGGu -3'
miRNA:   3'- -GGCGGGUGCa-CGGAGC-UGAC--------GCUCCU- -5'
23338 5' -59.8 NC_005259.1 + 20174 0.75 0.158432
Target:  5'- gCGCCCGCc-GCCUCGGCUGaCGAGa- -3'
miRNA:   3'- gGCGGGUGcaCGGAGCUGAC-GCUCcu -5'
23338 5' -59.8 NC_005259.1 + 15312 0.77 0.121869
Target:  5'- gCCGCCCACG-GUCUCGACgGCGguacugguaaAGGGg -3'
miRNA:   3'- -GGCGGGUGCaCGGAGCUGaCGC----------UCCU- -5'
23338 5' -59.8 NC_005259.1 + 1449 0.77 0.112527
Target:  5'- aCUGCUCGCGUGCUUCGcACUGCacuucuccccgaGAGGAu -3'
miRNA:   3'- -GGCGGGUGCACGGAGC-UGACG------------CUCCU- -5'
23338 5' -59.8 NC_005259.1 + 4244 1.1 0.000506
Target:  5'- cCCGCCCACGUGCCUCGACUGCGAGGAc -3'
miRNA:   3'- -GGCGGGUGCACGGAGCUGACGCUCCU- -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.