miRNA display CGI


Results 1 - 15 of 15 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
12340 3' -54.9 NC_003324.1 + 22697 0.66 0.778405
Target:  5'- aGCGCAUCcacGCCGAGcUCGucGAa -3'
miRNA:   3'- gCGCGUAGcaaCGGCUCuAGCucCUc -5'
12340 3' -54.9 NC_003324.1 + 32190 0.66 0.778405
Target:  5'- aCGCGCGUCG-UGCgCGGcaucuUCGAGGc- -3'
miRNA:   3'- -GCGCGUAGCaACG-GCUcu---AGCUCCuc -5'
12340 3' -54.9 NC_003324.1 + 30069 0.66 0.778405
Target:  5'- aGUGCAcCG--GCCGGGAUCGAugcGGAc -3'
miRNA:   3'- gCGCGUaGCaaCGGCUCUAGCU---CCUc -5'
12340 3' -54.9 NC_003324.1 + 36687 0.66 0.776416
Target:  5'- uCGCGCGggcacaagGUCGcGAUCGAGGAa -3'
miRNA:   3'- -GCGCGUagcaa---CGGCuCUAGCUCCUc -5'
12340 3' -54.9 NC_003324.1 + 19394 0.66 0.758263
Target:  5'- gCGCGCGUCGcgccgUGCaUGAGGUCGGcuAGa -3'
miRNA:   3'- -GCGCGUAGCa----ACG-GCUCUAGCUccUC- -5'
12340 3' -54.9 NC_003324.1 + 6068 0.66 0.747995
Target:  5'- uGC-CAUCGcugGUCGAGAUCGccGAGg -3'
miRNA:   3'- gCGcGUAGCaa-CGGCUCUAGCucCUC- -5'
12340 3' -54.9 NC_003324.1 + 5372 0.66 0.747995
Target:  5'- aCGCGgGUUccgGCCGGGAucauagcgagaUCGAGGAu -3'
miRNA:   3'- -GCGCgUAGcaaCGGCUCU-----------AGCUCCUc -5'
12340 3' -54.9 NC_003324.1 + 45981 0.67 0.716539
Target:  5'- aGCGg--CGgcGCCGA-AUCGAGGAGc -3'
miRNA:   3'- gCGCguaGCaaCGGCUcUAGCUCCUC- -5'
12340 3' -54.9 NC_003324.1 + 49287 0.68 0.662612
Target:  5'- gGCGUucggAUCGUcgGCaggaAGAUCGAGGAGc -3'
miRNA:   3'- gCGCG----UAGCAa-CGgc--UCUAGCUCCUC- -5'
12340 3' -54.9 NC_003324.1 + 5418 0.68 0.618896
Target:  5'- gGCGcCGUUGgUGUCGAGAucgucggcgUCGAGGAu -3'
miRNA:   3'- gCGC-GUAGCaACGGCUCU---------AGCUCCUc -5'
12340 3' -54.9 NC_003324.1 + 17638 0.68 0.617803
Target:  5'- uCGCGCAUCGgcaUGCCGGaccuuugguuccGAUCGccgacgcGGGAa -3'
miRNA:   3'- -GCGCGUAGCa--ACGGCU------------CUAGC-------UCCUc -5'
12340 3' -54.9 NC_003324.1 + 32918 0.69 0.597068
Target:  5'- gGCGCGUCagUGgCGAuGAUCGAGGcGg -3'
miRNA:   3'- gCGCGUAGcaACgGCU-CUAGCUCCuC- -5'
12340 3' -54.9 NC_003324.1 + 13362 0.69 0.564567
Target:  5'- uGCGacgCGcUGCCGuacGGAUCGAGGAu -3'
miRNA:   3'- gCGCguaGCaACGGC---UCUAGCUCCUc -5'
12340 3' -54.9 NC_003324.1 + 33606 0.71 0.480769
Target:  5'- uGCGCAgcgCGUUGCCGAcGG-CGAuGAGa -3'
miRNA:   3'- gCGCGUa--GCAACGGCU-CUaGCUcCUC- -5'
12340 3' -54.9 NC_003324.1 + 18864 1.08 0.001432
Target:  5'- cCGCGCAUCGUUGCCGAGAUCGAGGAGc -3'
miRNA:   3'- -GCGCGUAGCAACGGCUCUAGCUCCUC- -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.