miRNA display CGI


Results 1 - 20 of 24 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
23488 5' -60.8 NC_005259.1 + 65136 0.66 0.513933
Target:  5'- cCGGCGGcCACCcccgacaagucgaaaCGGgccaugGCCCGccGGGUCa -3'
miRNA:   3'- -GCCGCCaGUGGa--------------GCCa-----CGGGU--CCUAG- -5'
23488 5' -60.8 NC_005259.1 + 4752 0.66 0.50304
Target:  5'- aGGcCGGUC-CCUCGG-GCC-GGGcUCa -3'
miRNA:   3'- gCC-GCCAGuGGAGCCaCGGgUCCuAG- -5'
23488 5' -60.8 NC_005259.1 + 20654 0.66 0.493225
Target:  5'- uCGGCGG-CACCg-GG-GCCgAGGAc- -3'
miRNA:   3'- -GCCGCCaGUGGagCCaCGGgUCCUag -5'
23488 5' -60.8 NC_005259.1 + 66905 0.66 0.483498
Target:  5'- aCGGCGGUagauCCggcagcgcgCGGUGCucgaCCGGGGUg -3'
miRNA:   3'- -GCCGCCAgu--GGa--------GCCACG----GGUCCUAg -5'
23488 5' -60.8 NC_005259.1 + 41638 0.66 0.472906
Target:  5'- uGGCGGU-GCCggucugcgggcgcUCGGUGagCGGGAUCu -3'
miRNA:   3'- gCCGCCAgUGG-------------AGCCACggGUCCUAG- -5'
23488 5' -60.8 NC_005259.1 + 5845 0.66 0.472906
Target:  5'- aCGuGCGcaugcucGUCGCCUCGGUGCuCCAcGAg- -3'
miRNA:   3'- -GC-CGC-------CAGUGGAGCCACG-GGUcCUag -5'
23488 5' -60.8 NC_005259.1 + 34861 0.66 0.464329
Target:  5'- aGGCGuGUCcuCgUCGGUGCcggaCCGGGGUg -3'
miRNA:   3'- gCCGC-CAGu-GgAGCCACG----GGUCCUAg -5'
23488 5' -60.8 NC_005259.1 + 60053 0.67 0.445563
Target:  5'- uCGG-GGUCuuCUCGG-GCUCAGGcUCg -3'
miRNA:   3'- -GCCgCCAGugGAGCCaCGGGUCCuAG- -5'
23488 5' -60.8 NC_005259.1 + 37282 0.67 0.445563
Target:  5'- cCGGCaGGacuugCAUggCGGUGCCCGccGGGUCa -3'
miRNA:   3'- -GCCG-CCa----GUGgaGCCACGGGU--CCUAG- -5'
23488 5' -60.8 NC_005259.1 + 14075 0.67 0.445563
Target:  5'- aCGGCGGUgGCCUacGUGCgCAGcgaGGUCg -3'
miRNA:   3'- -GCCGCCAgUGGAgcCACGgGUC---CUAG- -5'
23488 5' -60.8 NC_005259.1 + 15145 0.67 0.40935
Target:  5'- aCGG-GGcCACCUCGGUGgCCgAGGc-- -3'
miRNA:   3'- -GCCgCCaGUGGAGCCAC-GGgUCCuag -5'
23488 5' -60.8 NC_005259.1 + 63666 0.68 0.391945
Target:  5'- aCGcCGGaCACCUCGGgcaccggcgcGCCgGGGAUCu -3'
miRNA:   3'- -GCcGCCaGUGGAGCCa---------CGGgUCCUAG- -5'
23488 5' -60.8 NC_005259.1 + 61053 0.68 0.375028
Target:  5'- gGGCGGcUCACCUUG-UGCCgGGcAUCg -3'
miRNA:   3'- gCCGCC-AGUGGAGCcACGGgUCcUAG- -5'
23488 5' -60.8 NC_005259.1 + 33324 0.68 0.366757
Target:  5'- uCGGCGGUCACg-CGGaagUGaUCGGGGUCg -3'
miRNA:   3'- -GCCGCCAGUGgaGCC---ACgGGUCCUAG- -5'
23488 5' -60.8 NC_005259.1 + 55018 0.68 0.365937
Target:  5'- uGGCGGUCGUCUCGGcacgggcUGCCgAGGu-- -3'
miRNA:   3'- gCCGCCAGUGGAGCC-------ACGGgUCCuag -5'
23488 5' -60.8 NC_005259.1 + 41593 0.69 0.327316
Target:  5'- uGaGCGGUCGCgCgUCGGUGUUUcGGAUCg -3'
miRNA:   3'- gC-CGCCAGUG-G-AGCCACGGGuCCUAG- -5'
23488 5' -60.8 NC_005259.1 + 16797 0.69 0.327316
Target:  5'- -cGCGGUCGCguacaucgcgCUCGG-GgCCGGGGUCa -3'
miRNA:   3'- gcCGCCAGUG----------GAGCCaCgGGUCCUAG- -5'
23488 5' -60.8 NC_005259.1 + 18705 0.69 0.311713
Target:  5'- aCGGCGGUCugACCucgaucaUCGGgccGCCCGGcAUCg -3'
miRNA:   3'- -GCCGCCAG--UGG-------AGCCa--CGGGUCcUAG- -5'
23488 5' -60.8 NC_005259.1 + 58656 0.7 0.277523
Target:  5'- -cGCGGUaGCC-CGGUGCaCCGGGGUg -3'
miRNA:   3'- gcCGCCAgUGGaGCCACG-GGUCCUAg -5'
23488 5' -60.8 NC_005259.1 + 53529 0.71 0.264453
Target:  5'- -aGCGG-CACgggCUCGGUGCCCGGuGUCg -3'
miRNA:   3'- gcCGCCaGUG---GAGCCACGGGUCcUAG- -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.