miRNA display CGI


Results 1 - 13 of 13 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
1517 3' -57.5 NC_001335.1 + 12738 0.66 0.593015
Target:  5'- gGCuUUCAcGUCCAGGucgGGGAuCCGGCGc -3'
miRNA:   3'- aCG-AGGU-CAGGUUCca-CCUU-GGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 20221 0.66 0.59193
Target:  5'- gGCUgaCCGgguucGUCCGAGGgaUGGuccaacuGGCCGGCGa -3'
miRNA:   3'- aCGA--GGU-----CAGGUUCC--ACC-------UUGGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 34869 0.66 0.560624
Target:  5'- ---aCCaAGUUCAAGGUGcuGCCGGCa -3'
miRNA:   3'- acgaGG-UCAGGUUCCACcuUGGCCGc -5'
1517 3' -57.5 NC_001335.1 + 1180 0.67 0.528738
Target:  5'- gUGCUCCGGUUCc----GGGACCGGgGc -3'
miRNA:   3'- -ACGAGGUCAGGuuccaCCUUGGCCgC- -5'
1517 3' -57.5 NC_001335.1 + 34 0.67 0.528738
Target:  5'- -uUUCCaAGUCgaucaGAGGUaGGGGCCGGCa -3'
miRNA:   3'- acGAGG-UCAGg----UUCCA-CCUUGGCCGc -5'
1517 3' -57.5 NC_001335.1 + 1244 0.67 0.497546
Target:  5'- gGCgucaCCGGUggcggCgGAaGUGGAGCCGGCGg -3'
miRNA:   3'- aCGa---GGUCA-----GgUUcCACCUUGGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 17040 0.67 0.484287
Target:  5'- gGCUCCGGUgagcaucgugCCGAGcGUgcucgccagcgucuGGAagGCCGGCGu -3'
miRNA:   3'- aCGAGGUCA----------GGUUC-CA--------------CCU--UGGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 17612 0.68 0.477217
Target:  5'- cGCagCGGUCaaCAAGGccaaGGAGCUGGCGu -3'
miRNA:   3'- aCGagGUCAG--GUUCCa---CCUUGGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 2714 0.68 0.428302
Target:  5'- cUGUUCaccUCCuGGGUGGAGCgGGCa -3'
miRNA:   3'- -ACGAGgucAGGuUCCACCUUGgCCGc -5'
1517 3' -57.5 NC_001335.1 + 26233 0.69 0.418877
Target:  5'- gGCUCCAGgccCCGAGGcgcgGGuuCUGGCc -3'
miRNA:   3'- aCGAGGUCa--GGUUCCa---CCuuGGCCGc -5'
1517 3' -57.5 NC_001335.1 + 29561 0.69 0.400412
Target:  5'- cGCUugCCAGUCUc-GGUGcGACCGGUGa -3'
miRNA:   3'- aCGA--GGUCAGGuuCCACcUUGGCCGC- -5'
1517 3' -57.5 NC_001335.1 + 19754 0.7 0.348239
Target:  5'- aGCUgCAGUuccCCAAGGUGuggaucaucuucGGGCCGGCc -3'
miRNA:   3'- aCGAgGUCA---GGUUCCAC------------CUUGGCCGc -5'
1517 3' -57.5 NC_001335.1 + 43449 1.08 0.000683
Target:  5'- cUGCUCCAGUCCAAGGUGGAACCGGCGc -3'
miRNA:   3'- -ACGAGGUCAGGUUCCACCUUGGCCGC- -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.