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
18139 3' -58.6 NC_004680.1 + 11147 0.66 0.599078
Target:  5'- cCGCCCGGCaGCaggauGC-CAU-CGAcgGCGGGa -3'
miRNA:   3'- -GCGGGCCGcCG-----UGaGUAaGCU--CGUCC- -5'
18139 3' -58.6 NC_004680.1 + 21566 0.66 0.588487
Target:  5'- gCGCaCGGCaacGGCACcgcgcacagUCAgccggugaccguUUCGAGCGGGg -3'
miRNA:   3'- -GCGgGCCG---CCGUG---------AGU------------AAGCUCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 51771 0.66 0.567416
Target:  5'- aGCCgauGCGGCGgUCAUUCGuGCAu- -3'
miRNA:   3'- gCGGgc-CGCCGUgAGUAAGCuCGUcc -5'
18139 3' -58.6 NC_004680.1 + 49619 0.66 0.54654
Target:  5'- uCGCCCaaGCGcGCACUCucgugccCGAGCuGGu -3'
miRNA:   3'- -GCGGGc-CGC-CGUGAGuaa----GCUCGuCC- -5'
18139 3' -58.6 NC_004680.1 + 8390 0.67 0.536193
Target:  5'- cCGCCgGGUcgGGCcgcaugaaguACUCAUUCG-GCAGc -3'
miRNA:   3'- -GCGGgCCG--CCG----------UGAGUAAGCuCGUCc -5'
18139 3' -58.6 NC_004680.1 + 55161 0.67 0.504584
Target:  5'- uGCCCguguagaGGCGGguUUCGUcuuugggugggUCGAGguGGc -3'
miRNA:   3'- gCGGG-------CCGCCguGAGUA-----------AGCUCguCC- -5'
18139 3' -58.6 NC_004680.1 + 48518 0.67 0.495556
Target:  5'- uGCCCGGuCGGguCaUCcacUUCGGGCGGc -3'
miRNA:   3'- gCGGGCC-GCCguG-AGu--AAGCUCGUCc -5'
18139 3' -58.6 NC_004680.1 + 34280 0.67 0.485612
Target:  5'- -cCCCGGCagGGCGCUuuuuugCGUUCuGGCGGGu -3'
miRNA:   3'- gcGGGCCG--CCGUGA------GUAAGcUCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 753 0.67 0.485612
Target:  5'- cCGUuuGGCuGGCcgucgGCg-GUUCGAGCGGGc -3'
miRNA:   3'- -GCGggCCG-CCG-----UGagUAAGCUCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 47216 0.68 0.466016
Target:  5'- gGUCCgGGCGGUgGCUCGggCGgaAGCGGGa -3'
miRNA:   3'- gCGGG-CCGCCG-UGAGUaaGC--UCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 21290 0.68 0.427182
Target:  5'- gGCuCCGGCGGCACcggccaguuuuggUCAUUCGuaaucguucCGGGa -3'
miRNA:   3'- gCG-GGCCGCCGUG-------------AGUAAGCuc-------GUCC- -5'
18139 3' -58.6 NC_004680.1 + 8627 0.7 0.361394
Target:  5'- aCGCgCGGCGGCAC-CAUuguucUCGGGUuucuuaacagacaucAGGg -3'
miRNA:   3'- -GCGgGCCGCCGUGaGUA-----AGCUCG---------------UCC- -5'
18139 3' -58.6 NC_004680.1 + 21559 0.7 0.358089
Target:  5'- gGgCCGGUGGC-CUCAUcuggCGAGCAa- -3'
miRNA:   3'- gCgGGCCGCCGuGAGUAa---GCUCGUcc -5'
18139 3' -58.6 NC_004680.1 + 36006 0.7 0.341883
Target:  5'- gCGcCCCGGCGGC-CagAUUCGAucGCGGa -3'
miRNA:   3'- -GC-GGGCCGCCGuGagUAAGCU--CGUCc -5'
18139 3' -58.6 NC_004680.1 + 28141 0.71 0.303722
Target:  5'- gCGaCCgCGGCGGUcaucuGCUCGUcguaGAGCGGGg -3'
miRNA:   3'- -GC-GG-GCCGCCG-----UGAGUAag--CUCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 22077 0.71 0.296494
Target:  5'- gGUCCGGCGGCG----UUCGAGCcGGu -3'
miRNA:   3'- gCGGGCCGCCGUgaguAAGCUCGuCC- -5'
18139 3' -58.6 NC_004680.1 + 42758 0.74 0.209047
Target:  5'- uCGCCgCGGCauccguguaggaGGCGC-CGUcgUCGAGCAGGc -3'
miRNA:   3'- -GCGG-GCCG------------CCGUGaGUA--AGCUCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 50784 0.77 0.130025
Target:  5'- aCGCCCGGUGGCACUaugacuaCG-GCGGGu -3'
miRNA:   3'- -GCGGGCCGCCGUGAguaa---GCuCGUCC- -5'
18139 3' -58.6 NC_004680.1 + 42161 1.1 0.000522
Target:  5'- gCGCCCGGCGGCACUCAUUCGAGCAGGu -3'
miRNA:   3'- -GCGGGCCGCCGUGAGUAAGCUCGUCC- -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.