miRNA display CGI


Results 1 - 16 of 16 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
20812 3' -60.2 NC_004689.1 + 28025 0.66 0.586677
Target:  5'- --uCCAuCGGCgguugCCGACGC-ACAuCCCGg -3'
miRNA:   3'- ggcGGU-GCCGa----GGCUGCGaUGU-GGGC- -5'
20812 3' -60.2 NC_004689.1 + 33686 0.66 0.586677
Target:  5'- -aGCUgauCGGCUCCGGCaGCgGCAUCgGg -3'
miRNA:   3'- ggCGGu--GCCGAGGCUG-CGaUGUGGgC- -5'
20812 3' -60.2 NC_004689.1 + 19610 0.66 0.546044
Target:  5'- gCCGaCCACGGCaaugUCG-CGC-AUACCCu -3'
miRNA:   3'- -GGC-GGUGCCGa---GGCuGCGaUGUGGGc -5'
20812 3' -60.2 NC_004689.1 + 59320 0.66 0.536019
Target:  5'- uUCGUgGCuGGCUCCGGCGaacgucGCugCCa -3'
miRNA:   3'- -GGCGgUG-CCGAGGCUGCga----UGugGGc -5'
20812 3' -60.2 NC_004689.1 + 30850 0.67 0.526058
Target:  5'- gCGCCAcCGGCUCCGuuuccagaaGC-ACugCCu -3'
miRNA:   3'- gGCGGU-GCCGAGGCug-------CGaUGugGGc -5'
20812 3' -60.2 NC_004689.1 + 7520 0.67 0.526058
Target:  5'- uCCGCUuagccaucaGCGGCgCUuACGCuUGCGCCCa -3'
miRNA:   3'- -GGCGG---------UGCCGaGGcUGCG-AUGUGGGc -5'
20812 3' -60.2 NC_004689.1 + 1862 0.67 0.525066
Target:  5'- gUCGCCuugcccuUGGCgcgcugaUCCGAUGCUGCGgCCu -3'
miRNA:   3'- -GGCGGu------GCCG-------AGGCUGCGAUGUgGGc -5'
20812 3' -60.2 NC_004689.1 + 24823 0.67 0.496621
Target:  5'- cCCGCCACGGUgCgCGAgaGgUugGCCUGa -3'
miRNA:   3'- -GGCGGUGCCGaG-GCUg-CgAugUGGGC- -5'
20812 3' -60.2 NC_004689.1 + 37359 0.67 0.490821
Target:  5'- aCGaCCACGGCUUCGccgucgagcaagaucACGU--CGCCCGa -3'
miRNA:   3'- gGC-GGUGCCGAGGC---------------UGCGauGUGGGC- -5'
20812 3' -60.2 NC_004689.1 + 45677 0.67 0.486973
Target:  5'- gCGCCACGGgUCUGcauuuccaacaGCGCggcgauCACCUGu -3'
miRNA:   3'- gGCGGUGCCgAGGC-----------UGCGau----GUGGGC- -5'
20812 3' -60.2 NC_004689.1 + 26885 0.68 0.467949
Target:  5'- aCCGCagcgCACGGCuuUCCGACGaCU-CugCCu -3'
miRNA:   3'- -GGCG----GUGCCG--AGGCUGC-GAuGugGGc -5'
20812 3' -60.2 NC_004689.1 + 16109 0.68 0.458581
Target:  5'- -aGCCGguucCGGCUCCGGCGaagGCgACUCGu -3'
miRNA:   3'- ggCGGU----GCCGAGGCUGCga-UG-UGGGC- -5'
20812 3' -60.2 NC_004689.1 + 63066 0.68 0.431097
Target:  5'- gCGCUcCGGCgaaaCCGACGCacGCACUCa -3'
miRNA:   3'- gGCGGuGCCGa---GGCUGCGa-UGUGGGc -5'
20812 3' -60.2 NC_004689.1 + 23279 0.69 0.413319
Target:  5'- aCGCUGCGGCUgCauCGCUGC-CCCa -3'
miRNA:   3'- gGCGGUGCCGAgGcuGCGAUGuGGGc -5'
20812 3' -60.2 NC_004689.1 + 22975 0.69 0.376672
Target:  5'- uUCGCCACGGgUgcguccaccgguucCCGGCGUgguUGCACCgGg -3'
miRNA:   3'- -GGCGGUGCCgA--------------GGCUGCG---AUGUGGgC- -5'
20812 3' -60.2 NC_004689.1 + 40361 1.11 0.000441
Target:  5'- cCCGCCACGGCUCCGACGCUACACCCGg -3'
miRNA:   3'- -GGCGGUGCCGAGGCUGCGAUGUGGGC- -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.